NBAF Complete Bibliography
Please note that the list of publications for 2020 will be completed March 2021.
2020
Joint
1. Pascoal S, Risse JE, Zhang X, Blaxter M, Cezard T, Challis RJ, Gharbi K, Hunt J, Kumar S, Langan E, Liu X, Rayner JG, Ritchie MG, Snoek BL, Trivedi U, Bailey NW (2020) Field cricket genome reveals the footprint of recent, abrupt adaptation in the wild. Evolution Letters 4. (10.1002/evl3.148) (NBAF-EL)
NBAF-E 1. Borrell JS, Jasmin Zohren, Richard A. Nichols, Richard J. A. Buggs (2020). Genomic assessment of local adaptation in dwarf birch to inform assisted gene flow. Evolutionary Applications 31, 161- 175. (10.1111/eva.12883) 2. Gervais L, Hewison AJM, Morellet N, Bernard M, Merlet J, Cargnelutti B, Chaval Y, Pujol B, Quéméré E (2020) Pedigreefree quantitative genetic approach provides evidence for heritability of movement tactics in wild roe deer. Journal of Evolutionary Biology, Early View. (10.1111/jeb.13594) 3. Lerebours A, Robson S, Sharpe C, Smith JT (2020) Subtle effects of radiation on embryo development of the 3-spined stickleback. Chemosphere 248, 126005. (10.1016/j.chemosphere.2020.126005) 4. Truebano M, Robertson SD, Houston SJS, Spicer JI (2020) Ontogeny of osmoregulation in the brackishwater amphipod Gammarus chevreuxi. Journal of Experimental Marine Biology and Ecology 524, 51312. (10.1016/j.jembe.2020.151312)
NBAF-L
1. Boylan AA, Stewart DI, Graham JT, Burke IT (2020) The behaviour of low molecular weight organic carbon-14 containing compounds in contaminated groundwater during denitrification and iron-reduction. Geomicrobiology Journal. (10.1080/01490451.2020.1728442) 2. Broniewski JM, Meaden S, Paterson S, Buckling A, Westra ER (2020) The effect of phage genetic diversity on bacterial resistance evolution. ISME Journal. (10.1038/s41396-019-0577-7) 3. Chevallereau A, Meaden S, Fradet O, Landsberger M, Maestri A, Biswas A, Gandon S, van Houte S, Westra ER (2020) Exploitation of the cooperative behaviors of anti-CRISPR phages. Cell Host Microbe 27, 189-198.e6. (10.1016/j.chom.2019.12.004) 4. Cole G, Ditchfield PW, Dulias K, Edwards CJ, Reynolds A, Waldron T (2020) Summary justice or the King’s will? The first case of formal facial mutilation from Anglo-Saxon England. Antiquity. 5. Czaja W, Bensasson D, Ahn HW, Garfinkel D, Bergman C (2019) Evolution of Ty1 copy number control in yeast by horizontal transfer and recombination. Plos Genetics (10.1371/journal.pgen.1008632) 6. Horrocks CA, Newsham KK, Cox F, Garnett MH, Robinson CH, Dungait JAJ (2020) Predicting climate change impacts on maritime Antarctic soils: a space-for-time substitution study. Soil Biology & Biochemistry 141, 107682. (10.1016/j.soilbio.2019.107682) 7. Lilley TM, Wilson IW, Field KA, Reeder DA, Vodzak ME, Turner G, (…) Paterson S (2020) Genome-wide changes in genetic diversity in a population of Myotis lucifugus affected by white- nose syndrome. (10.1101/764647) 8. Llewellyn CA, Airs RL, Farnham G, Greig C (in press) Synthesis, regulation and degradation of carotenoids under low level UV-B radiation in the filamentous cyanobacterium Chlorogloeopsis fritschii PCC 6912. Frontiers in Microbiology. (10.3389/fmicb.2020.00163).
1 9. Rollie C, Chevallereau A, Watson BNJ, Chyou TY, Fradet O, McLeod I, Fineran PC, Brown CM, Gandon S, Westra ER (2020) Targeting of temperate phages drives loss of type I CRISPR-Cas systems. Nature 578, 149-153. (10.1038/s41586-020-1936-2)
NBAF-S
1. Doble CJ, Hipperson H, Salzburger W, Horsburgh G, Mwita C, Murrell DJ, Day JJ (2020) Testing the performance of eDNA metabarcoding for surveying highly diverse tropical fish communities: A case study from Lake Tanganyika. Environmental DNA (10.1002/edn3.43) 2. dos Remedios N, Küpper C, Székely T, Zefania S, Burns F, Bolton M, Lee PLM (2020) Genetic structure among Charadrius plovers on the African mainland and islands of Madagascar and St Helena. Ibis 162, 104-118. (10.1111/ibi.12694) 3. D’Urban Jackson J, Bruford MW, Székely T, DaCosta J, Sorenson MD, Edwards SV, Russo IRM, Maher K, Cruz-López M, Galindo-Espinosa D, De Sucre-Medrano AE, Cavitt J, Pruner R, Morales AL, Gonzalez O, Burke T, Küpper C (2020) Population differentiation and demography of the threatened snowy plover Charadrius nivosus estimated by four different genetic markers. Conservation Genetics (10.1007/s10592-020-01256-8). 4. Finnegan SR, Nitsche L, Fowler K, Pomiankowski A (2020) Does meiotic drive alter male mate preference? Behavioural Ecology 31, 194-201. (10.1093/beheco/arz176) 5. Giraldo-Deck L, Goymann W, Safari I, Dawson DA, Stocks M, Burke T, Lank D, Kuepper C (2020) Development of intraspecific size variation in black coucals, white-browed coucals and ruffs from hatching to fledging. Journal of Avian Biology. In press. (10.1111/jav.02440) 6. Lieber L, Hall G, Hall J, Berrow S, Johnston E, Gubili C, Sarginson J, Francis M, Dufy C, Wintner SP, Doherty PD, Godley BJ, Hawkes LA, Witt MJ, Henderson SM, de Sabata E, Shivji MS, Dawson DA, Sims DW, Jones CS, Noble LR (2020) Spatio-temporal genetic tagging of a cosmopolitan planktivorous shark provides insight to gene flow, temporal variation and site- specific re-encounters. Nature Scientific Reports 10, 1661. (10.1038/s41598-020-58086-4) 7. Meade L, Finnegan SR, Kad R, Fowler K, Pomiankowski A (2020) Maintenance of fertility in the face of meiotic drive. American Naturalist 195, 743-751. (10.1086/707372) 8. Orland C, Yakimovich KM, Mykytczuk NCS, Basiliko N, Tanentzap AJ (2020) Think global, act local: The small scale environment mainly influences microbial community development and function in lake sediment. Limnology & Oceanography 65, S88-S100. (10.1002/lno.11370) 9. Langley EJG, Adams G, Beardsworth CE, Dawson DA, Laker PR, van Horik JO, Whiteside MA, Wilson AJ, Madden JR (2020) Heritability and correlations among learning and inhibitory control traits Behavioral Ecology araa029. (10.1093/beheco/araa029)
Theses
1. Doble CJ (2020) PhD thesis (UCL) Testing the potential of environmental DNA methods for surveying Lake Tanganyika’s highly diverse fish communities. (NBAF-S) 2. Garrett L (2020) PhD Thesis (University of Birmingham) From population to individual: Colony dynamics and structure in time and space of a highly social seabird. (NBAF-S) 3. Sendell-Price AT (2020) PhD thesis (University of Oxford) The genomics of diversification in South Pacific silvereyes (Zosterops lateralis). (NBAF-S) 4. van Lieshout HJ (2020) PhD thesis (University of Leeds) Early-life effects on telomere dynamics in European badgers (Meles meles). (NBAF-S)
2 2019
[Joint]
1. Wong ELY, Nevado B, Osborne OG, Papadopulos AST, Bridle JR, Hiscock SJ, Filatov DA (2019) Strong divergent selection at multiple loci in two closely related species of ragworts adapted to high and low elevations on Mount Etna. Molecular Ecology 29, 394-412. (10.1111/mec.15319) (NBAF-EL)
[NBAF-B]
1. MacAllister S, Mencuccini M, Sommer U, Engel J, Hudson A, Salmon Y, Dexter KG (2019) Drought-induced mortality in Scots pine: opening the metabolic black box. Tree Physiology 39, 1358-1370. (10.1093/treephys/tpz049)
[NBAF-E] 1. Bebane P, Hunt BJ, Pegoraro M, Jones AM, Marshall H, Rosato E, Mallon EB (2019) The effects of the neonicotinoid imidacloprid on gene expression and DNA methylation in the buff-tailed bumblebee Bombus terrestris. Proceedings of the Royal Society B: Biological Sciences 286, 20190718. (10.1098/rspb.2019.0718) 2. Bergero R, Charlesworth D, Levsen N, Wolff K (2019) Arms races with mitochondrial genome soft sweeps in a gynodioecious plant, Plantago lanceolata. Molecular Ecology 28, 2772-2785 (10.1111/mec.15121) 3. Cook N, Parker DJ, Tauber E, Pannebakker BA, Shuker DM (2019) Validating the demethylating effects of 5-aza-2’-deoxycytidine in insects requires a whole-genome approach (A reply to Ellers et al.) American Naturalist 194, 432-438. (10.1086/704248) 4. Dunning LT, Olofsson JK, Parisod C, Choudhury RR, Moreno-Villena JJ, Yang Y, Dionora J, Quick WP, Park M, Bennetzen JL, Besnard G, Nosil P, Osborne CP, Christin PA (2019) Lateral transfers of large DNA fragments spread functional genes among grasses. Proceedings of the National Academy of Sciences 116, 4416-4425. (10.1073/pnas.1810031116) 5. Gervais L, Perrier C, Bernard M, Merlet J, Pemberton JM, Pujol B, Quéméré E (2019) RADsequencing for estimating genomic relatedness matrix based heritability in the wild: A case study in roe deer. Molecular Ecology Resources 19, 1205-1217. (10.1111/1755-0998.13031) 6. Hearn J, Blaxter M, Schönrogge K, Nieves-Aldrey JL, Pujade-Villar J, Huguet E, Drezen JM, Shorthouse JD, Stone GN (2019) Genomic dissection of an extended phenotype: Oak galling by a cynipid gall wasp. PLoS Genetics 15, e1008398. (10.1371/journal.pgen.1008398) 7. Hearn J, Pearson M, Blaxter M, Wilson PJ, Little TJ (2019) Genome-wide methylation is modified by caloric restriction in Daphnia magna. BMC Genomics 20, 197. (10.1186/s12864-019- 5578-4) 8. Houston RD, Macqueen DJ (2019) Atlantic salmon (Salmo salar L.) Genetics in the 21st century: taking leaps forward in aquaculture and biological understanding. Animal Genetics 50, 3-14. (10.1111/age.12748) 9. Hunt BJ, Mallon EB, Rosato E (2019) In silico identification of a molecular circadian system with novel features in the crustacean model organism Parhyale hawaiensis. Frontiers in Physiology 10, 1325. (10.3389/fphys.2019.01325) 10. Kauranen H, Kinnunen J, Hiillos AL Lankinen P, Hopkins D, Wiberg RAW, Ritchie MG, Hoikkala A (2019) Selection for reproduction under short photoperiods changes diapause- associated traits and induces widespread genomic divergence. Journal of Experimental Biology 222, 205831 (10.1242/jeb.205831). 11. Mackintosh A, Laetsch DR, Hayward A, Charlesworth B, Waterfall M, Vila R, Lohse K (2019) The determinants of genetic diversity in butterflies. Nature Communication 10, 3466. (10.1038/s41467-019-11308-4) 12. Marshall H, Lonsdale ZN, Mallon EB (2019) Methylation and Gene Expression Differences Between Reproductive Castes of Bumblebee Workers. Evolution Letters 3, 485-499. 13. Olofsson JK, Dunning LT, Lundgren MR, Barton HJ, Thompson J, Cuff N, Ariyarathne M, Yakandawala D, Sotelo G, Zeng K, Osborne CP, Nosil P, Christin PA (2019) Population-specific
3 selection on standing variation generated by lateral gene transfers in a grass. Current Biology 29, 3921-3927. (10.1016/j.cub.2019.09.023) 14. Reynolds LA, Hornett EA, Jiggins CD, Hurst GDD (2019) Suppression of Wolbachia-mediated male-killing in the butterfly Hypolimnas bolina involves a single genomic region. Peer Journal 31592190. (10.7717/peerj.7677) 15. Simpson KJ, Olofsson JK, Ripley BS, Osborne CP (2019) Frequent fires prime plant developmental responses to burning. Proceedings of the Royal Society of London Series B 286, 20191315. (10.1098/rspb.2019.1315) 16. Walker TW, Weckwerth W, Bragazza L, Fragner L, Forde BG, Ostle NJ, Signarbieux C, Sun X, Ward SE, Bardgett RD (2019) Plastic and genetic responses of a common sedge to warming have contrasting effects on carbon cycle processes. Ecology Letters 22, 159-169. (10.1111/ele.13178)
[NBAF-L]
1. Brown MR, Baptista JC, Lunn M, Swan DL, Smith SJ, Davenport RJ, Allen BD, Sloan WT, Curtis TP (2019) Coupled virus - bacteria interactions and ecosystem function in an engineered microbial system. Science Direct 152, 264-273. (10.1016/j.watres.2019.01.003) 2. Costeira R, Doherty R, Allen CCR, Larkin MJ, Kulakov LA (2019) Analysis of viral and bacterial communities in groundwater associated with contaminated land. Science Direct 656, 1413-1426. (10.1016/j.scitotenv.2018.11.429) 3. Cox FG, Newsham KK, Robinson CH (2019) Endemic and cosmopolitan fungal taxa exhibit differential abundances in total and active communities of Antarctic soils. Environmental Microbiology 21, 1586-96. (10.1111/1462-2920.14533) 4. George PBL, Creer S, Griffiths RI, Emmett BA, Robinson DA, Jones DL (2019) Primer and Database Choice affect Fungal Functional but not Biological Diversity Findings in a National Soil Survey. Frontiers in Environmental Science. (10.3389/fenvs.2019.00173) 5. George PBL, Lallias D, Creer S, Seaton FM, Kenny JG, Eccles RM, Griffiths RI, Lebron I, Emmett BA, Robinson DA, Jones DL (2019) Divergent national-scale trends of microbial and animal biodiversity revealed across diverse temperate soil ecosystems. Nature Communications 10. (10.1038/s41467-019-09031-1) 6. Griffiths SM, Antwis RE, Lenzi L, Lucaci A, Behringer DC, Butler IV MJ, Preziosi, RF (2019) Host genetics and geography influence microbiome composition in the sponge Ircinia campana. Journal of Animal Ecology 88, 11. (10.1111/1365-2656.13065) 7. Jenner RA, von Reumont BM, Campbell LI, Undheim EAB (2019) parallel evolution of complex centipede venoms revealed by comparative proteotranscriptomic analyses. Molecular Biology and Evolution 36, 2748–2763. (10.1093/molbev/msz181) 8. Jones HJ, Krober E, Stephenson J, Mausz MA, Jameson E, Millard A, Purdy KJ, Chen Y (2019) A new family of uncultivated bacteria involved in methanogenesis from the ubiquitous osmolyte glycine betaine in coastal saltmarsh sediments. Microbiome 7, 120. (10.1186/s40168-019-0732-4) 9. Knowles SCL, Eccles RM, Baltrunaite L (2019) Species identity dominates over environment in shaping the microbiota of small mammals. Wiley Online Library 22 (10.1111/ele.13240) 10. Larke-Mejia NL, Crombie A, Pratscher J, McGenity TJ, Murrell C (2019) Novel Isoprene- Degrading Proteobacteria from Soil and Leaves Identified by Cultivation and Metagenomics Analysis of Stable Isotope Probing Experiments. Frontiers in Microbiology 10, 2700. (10.3389/fmicb.2019.02700) 11. Larner W, Price T, Holman L, Wedell N (2019) An X-linked meiotic drive allele has strong, recessive fitness costs in female Drosophila pseudoobscura. Proceedings of the Royal Society of London Series B 286, 20192038. (10.1098/rspb.2019.2038) 12. Lilley TM, Prokkola JM, Blomberg AS, Paterson S, Johnson JS, Turner GG, (…) Field KA (2019) Resistance is futile: RNA-sequencing reveals differing responses to bat fungal pathogen in Nearctic Myotis lucifugus and Palearctic Myotis myotis. Oecologia 191, 295-309. (10.1007/s00442-019-04499-6) 13. McLean AHC, Godfray HCJ, Ellers J, Henry LM (2019) Host relatedness influences the composition of aphid microbiomes. Environmental Microbiology Reports 11, 808-816. (10.1111/1758-2229.12795)
4 14. O'Brien S, Kümmerli R, Paterson S, Winstanley C, Brockhurst MA (2019) Transposable temperate phages promote the evolution of divergent social strategies in Pseudomonas aeruginosa populations. Proceedings of the Royal Society of London Series B 286, 20191794. (10.1098/rspb.2019.1794) 15. Price TAR, Verspoor R, Wedell N (2019) Ancient gene drives: an evolutionary paradox. Proceedings of the Royal Society of London Series B 286, 20192267. (10.1098/rspb.2019.2267) 16. Puissant J, Jones B, Goodall T, Mang D, Blaud A, Gweon HS, Malik A, Jones DL, Clarke IM, Hirsch PR, Griffiths R (2019) The pH optimum of soil exoenzymes adapt to long term changes in soil pH. Soil Biology and Biochemistry 138, 107601. (10.1016/j.soilbio.2019.107601) 17. Rayner JG, Pascoal S, Bailey NW (2019) Release from intralocus sexual conflict? Evolved loss of a male sexual trait demasculinizes female gene expression. Proceedings of the Royal Society of London Series B 286, 20190497. (10.1098/rspb.2019.0497) 18. Seaton, FM, Jones, DL, Creer, S, George, PBL, Smart, SM, Lebron, I, Barrett, G, Emmett, BA, Robinson, DA (2019) Plant and soil communities are associated with the response of soil water repellency to environmental stress. Science of the Total Environment 687, 929-938. (10.1016/j.scitotenv.2019.06.052)
[NBAF-S]
1. Britton AW, Murrell DJ, McGill, RAR, Doble CJ, Ramage CI, Day JJ (2019) The effects of land use disturbance varies with trophic position in littoral cichlid fish communities from Lake Tanganyika. Freshwater Biology 64, 1114–1130. (10.1111/fwb.13287) 2. Cleasby IR, Wakefield ED, Morrissey B, Bodey, TW, Votier SC, Bearhop S, Hamer KC (2019) Using time-series similarity measures to compare animal movement trajectories in ecology. Behavioral Ecology and Sociobiology 73, 151. (10.1007/s00265-019-2761-1) 3. Couchoux C & Field J (2019) Parental manipulation of offspring size in social groups: a test using paper wasps. Behavioral Ecology & Sociobiology 73, 36. (10.1007/s00265-019-2646-3) 4. Deakin Z, Hamer KC, Lane J, Sherley RB, Bearhop S, Grecian WJ, Bodey T, Clark B, Morgan G, Phillips RA, Wakefield ED, Votier SC (2019) Sex differences in migration and demography of a wide-ranging seabird, the northern gannet. Marine Ecology Progress Series 622, 191-201. (10.3354/meps12986) 5. Finnegan SR, White NJ, Koh D, Camus MF, Fowler K, Pomiankowski A (2019) Meiotic drive reduces egg-to-adult viability in stalk-eyed flies. Proceedings of the Royal Society London B 286, 20191414. (10.1098/rspb.2019.1414) 6. Földvári M, Mikó I, Ulmer JM, dos Santos Rolo T, Csősz S, Pomiankowski A, Baumbach T, van de Kamp T (2019) Jumping and grasping: universal locking mechanisms in insect legs. Insect Systematics and Diversity 3, 1-16. (10.1093/isd/ixz018) 7. Grecian WJ, Williams H, Votier SC, Bearhop S, Cleasby I, Grémillet D, Hamer KC, Le Nuz M, Lescroël A, Newton J, Patrick S, Phillips RA, Wakefield ED, Bodey T (2019) Individual spatial consistency and dietary flexibility in the migratory behaviour of northern gannets wintering in the Northeast Atlantic. Frontiers in Ecology and Evolution 7 (10.3389/ fevo.2019.00214) 8. Hadjivasiliou Z & Pomiankowski A (2019) Evolution of the mating type locus with suppressed recombination. eLife 8, 48239. (10.7554/eLife.48239) 9. Howie J, Pomiankowski A, Fowler K (2019) Limits to environmental masking quality in sexual signals. Journal of Evolutionary Biology 32, 868-877. (10.1111/jeb.13491) 10. Khwaja N, JV Briskie & BJ Hatchwell (2019) Individuality, kin similarity and experimental playback of contact calls in cooperatively breeding riflemen. New Zealand Journal of Zoology (10.1080/03014223.2019.1587477) 11. Kleinschmidt B, Burger C, Dorsch M, Nehls G, Heinänen S, Morkūnas J, Žydelis R, Moorhouse- Gann RJ, Hipperson H, Symondson WOC, Quillfeldt P (2019) The diet of red-throated divers (Gavia stellate) overwintering in the German Bight (North Sea) analysed using molecular diagnostics. Marine Biology 166, 77 (10.1007/s00227-019-3523-3). 12. Lane JV, Spracklen DV, Hamer KC (2019) Effects of windscape on three-dimensional foraging behaviour in a wide-ranging marine predator, the northern gannet. Marine Ecology Progress Series 628, 183-193. (10.3354/meps13089)
5 13. Marjamäki P, Dugdale H, Dawson DA, McDonald RA, Delahay RJ, Burke TA, Wilson AJ (2019) Individual variation and the source-sink group dynamics of extra-group paternity in a social mammal. Behavioural Ecology 30, 301-312. (10.1093/beheco/ary164) 14. Meade L, Dinneen D, Kad R, Lynch DM, Fowler K, Pomiankowski A (2019) Ejaculate sperm number compensation in stalk-eyed flies carrying a selfish meiotic drive element. Heredity 122, 916-926. (10.1038/s41437-018-0166-y) 15. Parsons PJ, Grinsted L, Field J (2019) Partner choice correlates with fine scale kin structuring in the paper wasp Polistes dominula. PLoS ONE 14, e0221701. (10.1371/journal.pone.0221701) 16. Santos TL, Fernandes C, Henley MD, Dawson DA, Mumby HS (2019) Conservation Genetic Assessment of Savannah Elephants (Loxodonta africana) in the Greater Kruger Biosphere, South Africa. Genes 10, 779. (10.3390/genes10100779) 17. Tollington S, Ewen JG, Newton J, McGill RAR, Smith D, Henshaw A, Fogell DJ, Tatayah V, Greenwood A, Jones CG, Groombridge JJ (2019) Individual consumption of supplemental food as a predictor of reproductive performance and viral infection intensity. Journal of Applied Ecology 56, 594-603. (10.1111/1365-2664.13303) 18. van Boheemen LA, Hammers M, Kingma SA, Richardson DS, Burke T, Komdeur J, Dugdale HL (2019) Compensatory and additive helper effects in the cooperatively breeding Seychelles warbler (Acrocephalus sechellensis). Ecology and Evolution 9, 2986-2995. (10.1002/ece3.4982) 19. van Lieshout SHJ, Bretman A, Newman C, Buesching CD, Macdonald DW, Dugdale HL (2019) Individual variation in early-life telomere length and survival in a wild mammal. Molecular Ecology 28, 4152–4165. (10.1111/mec.15212)
Theses
1. Barnett R (2019) PhD thesis (The University of Birmingham) The biology of suspended animation. (NBAF-B) 2. Brien M (2019) PhD Thesis (the University of Sheffield) The genetics and evolution of iridescent structural colour in Heliconius butterflies. (NBAF-E) (uk.bl.ethos.798098) 3. dos Santos DJF (viva Dec 2019) PhD Thesis (University of Sheffield) Evolutionary ecology of health in Asian elephants. (NBAF-S) 4. Goodsell R (2019) PhD Thesis (University of Sheffield) Investigating the drivers of arthropod diversity in agro-ecosystems using metabarcoding. (NBAF-S) (uk.bl.ethos.770167) 5. Hobbs C (2019) PhD thesis (Canterbury Christ Church University) Understanding the Shining Ramshorn Snail, Segmentina nitida: morphology, genetics and breeding. (NBAF-S) (uk.bl.ethos.787887) 6. Hosegood J (2019) PhD Thesis (University of Bangor) Genomic tools for conservation and management of manta and devil rays (Mobula spp.). (NBAF-S) 7. Kleinschmidt B (2019) PhD Thesis (Cardiff University) Diet analysis of Seabirds (Red-throated Divers and Scopoli’s shearwater) in relation to habitat use, human activities and movement ecology. (NBAF-S) 8. Marjamaki P (2019) PhD Thesis (University of Exeter) The genetic basis of variation in bovine tuberculosis infection, progression and diagnosis in a wild animal host. (NBAF-S) (uk.bl.ethos.768622) 9. Mitchell L (2019) PhD Thesis (University of York) The influence of environmental variation on the breeding and foraging of the European nightjar. (NBAF-S) (uk.bl.ethos.794240) 10. Pellicer P (2019) PhD Thesis (Imperial College London) Composition and development of gut microbiota in birds. (NBAF-S) 11. Rasnaca I (2019) PhD Thesis (Cardiff University) Tracking the Ghost of the Genome: The epigenetics of pollution adaptation in an environmental sentinel. (NBAF-E) 12. Rimington O (2019) PhD Thesis (Cardiff University) Modelling latent information as a survival mechanism in earthworm genomes. (NBAF-E) 13. Stockdale JE (2019) PhD thesis (Cardiff University) Using high-throughput sequencing to track habitat use by thrushes exploiting heterogeneous farmland landscapes. (NBAF-S) (uk.bl.ethos.774973) 14. Timberlake TP (2019) PhD thesis (University of Bristol) Mind the gap: the importance of flowering phenology in pollinator conservation. (NBAF-S) (uk.bl.ethos.794570)
6
Other 1. Baynes A, Lange A, Whitlock K, Tyler CR, Jobling S (2019) Revisiting oestrogenic effects in wild fish: assessing and comparing contemporary and historical impacts. Environment agency report. (NBAF-ES) 2. Calero Preciado, C.; Boxall, J.; Soria-Carrasco, V.; Douterelo, I. (2019). Effect of temperature increase on microbial communities in chlorinated drinking water distribution systems. 9th International Young Water Professionals Conference, Toronto, Canada. Oral presentation and poster session. (NBAF-S) 3. Calero Preciado, C.; Boxall, J.; Soria-Carrasco, V.; Douterelo, I. (2019). Effect of temperature increase in bacterial and fungal communities of chlorinated drinking water distribution systems. Microbial Society Conference 2019, Belfast, UK. Poster session. (NBAF-S) 4. Calero Preciado, C.; Boxall, J.; Soria-Carrasco, V.; Douterelo, I. (2019). Microbial communities response to the increase in temperature in drinking water distribution systems. 8th Congress of European Microbiologists – FEMS 2019, Glasgow, Scotland. Poster session (NBAF-S) 5. Calero Preciado, C.; Husband, H; Maeng, S.; Boxall, J.; Douterelo, I. (2019). Influence of intermittent water supply in microbial biofilm mobilization. Oral presentation at the 1st Intermittent Water Supply Conference, Kampala, Uganda. (NBAF-S) 6. Fish K Talk: biofilms, ecology, water distribution systems and water quality; Tapton High School (2020) as part of their Science Seminar Schedule (NBAF-S) 7. Fish K: Young Water Professional Award: Best Abstract, 2019 "Best Abstract Award" and scholarship won to support attendance at WaterMicro2019: Health Related Water Microbiology Conference (Vienna, Austria). Awarded by the International Water Association. (NBAF-S) 8. Khalilur Rahman O (2019) Talk: The response of parasite-host interactions to habitat fragmentation, a multi-trophic level approach. 18 February 2019, Queen Mary University of London (NBAF-S) 9. Laetsch DR (2019) Talk: Population genomics of swallowtail butterflies: Iphiclides podalirius and I. feisthamelii, Popgroup meeting, Oxford Brookes, 01/2019 (NBAF-E) 10. Laetsch DR (2019) Talk: Butterfly speciation genomics, PacBio launch symposium Edinburgh, 02/2019 (NBAF-E) 11. Martinez-Padilla J, Wenzel M, Mougeot F, Perez-Rodriguez L, Piertney S, Redpath S (2019) Parasite-mediated selection in red grouse--consequences for population dynamics and mate choice. in Wildlife Disease Ecology: Linking Theory to Data and Application. Wildlife Disease Ecology: Linking Theory to Data and Application 296-320 (ISBN: 9781316501900). (NBAF-E) 12. Richardson D (2019) further funding: NERC grant using pilot data; Gut microbiome variation, fitness and senescence within a natural vertebrate population, University of East Anglia, NE/S010939/1 (NBAF-L) 13. Walton W (2019) Talk: Comparative Phylogeography in European Hymenopteran Parasitoids, Popgroup meeting, Oxford Brookes, 01/2019 (NBAF-E) 14. Williams M (2019) MSc dissertation (Imperial College) Pedigree Construction and Quantitative Genetic Analysis from Phenotypic and Genetic Data on the Maio Kentish Plover. (NBAF-S)
7 2018
[Joint]
1. Armstrong C, Richardson DS, Hipperson H, Horsburgh GJ, Küpper C, Percival-Alwyn L, Clark M, Burke T, Spurgin LG (2018) Genomic associations with bill length and disease reveal drift and selection across island bird populations. Evolution Letters 2, 22–36. (10.1002/evl3.38) (NBAF-ES) 2. Bianconi ME, Dunning LT, Moreno-Villena JJ, Osborne CP, Christin PA (2018) Gene duplication and dosage effects during the early emergence of C4 photosynthesis in the grass genus Alloteropsis. Journal of Experimental Botany 8, 1967–1980. (10.1093/jxb/ery029) (NBAF-EL) 3. Clark MS, Thorne MAS, King M, Hipperson H, Hoffman JI, Peck LS (2018) Life in the intertidal: cellular responses, methylation and epigenetics. Functional Ecology (10.1111/1365-2435.13077) (NBAF-ES) 4. Clucas GV, Younger JL, Kao D, Rogers AD, Bost C, Handley J, Miller G, Crofts S, Gharbi K, Miller KJ, Hart T (2018) Comparative population genomics in Antarctica: ecological & evolutionary factors driving patterns of intraspecific genetic variation in Antarctic and sub- Antarctic penguins. Molecular Ecology 27, 4680-4697. (10.1111/mec.14896) (NBAF-ES) 5. Fecchio A, Bell J, Collins M, Farias I, Trisos C, Tobias JA, Tkach V, Weckstein J, Ricklefs R, Batalha-Filho H (2018) Diversification by host-switching and dispersal shaped the diversity and distribution of avian malaria parasites in Amazonia. Oikos 127, 1233–1242. (10.1111/oik.05115) (NBAF-ES) 6. Hackel J, Vorontsova MS, Nanjarisoa OP, Hall RC, Razanatsoa J, Malakasi P, Besnard G (2018) Grass diversification in Madagascar: In situ radiation of two large C3 shade clades and support for a Miocene to Pliocene origin of C4 grassy biomes. Journal of Biogeography 45, 750-461. (10.1111/jbi.13147) (NBAF-ES) 7. Verspoor RL, Smith JM, Mannion NL, Hurst GD, Price TA (2018) Strong hybrid male incompatibilities impede the spread of a selfish chromosome between populations of a fly. Evolution Letters 2, 169-179. (10.1002/evl3.55) (NBAF-LS) 8. Wanelik KM, Begon M, Birtles RJ, Bradley JE, Friberg IM, Jackson JA, Taylor CH, Thomason AG, Turner AK, Paterson S (2018) A candidate tolerance gene identified in a natural population of field voles (Microtus agrestis). Molecular Ecology 27, 1044–1052. (10.1111/mec.14476) NBAF- LS) 9. Wenzel MA, Douglas A, Piertney SB (2018) Microbiome composition within a sympatric species complex of intertidal isopods (Jaera albifrons). PLoS ONE 13, 0202212. (10.1371/journal.pone.0202212) (NBAF-EL)
[NBAF-E]
1. Bates KA, Clare FC, O’Hanlon S, Bosch J, Brookes L, Hopkins K, McLaughlin E, Daniel O, Garner TWJ, Fisher MC, Harrison XA (2018) Amphibian chytridiomycosis outbreak dynamics are linked with host skin bacterial community structure. Nature Communications 9, 693. (10.1038/s41467-018-02967-w) 2. Borrell JS, Wang N, Nichols RA, Buggs RJA (2018) Genetic diversity maintained among fragmented populations of a tree undergoing range contraction. Heredity 121, 304–318. 3. Bunnefeld L, Hearn J, Stone GN, Lohse K (2018) Whole genome data reveal the complex history of a diverse ecological community. Proceedings of the National Academy of Sciences of the United States of America. (10.1101/233759) 4. Bush SJ, Muriuki C, McCulloch MEB, Farquhar IL, Clark EL, Hume DA (2018) Assembly and validation of conserved long non-coding RNAs in the ruminant transcriptome. BioRXiv (10.1101/253997) 5. Cook N, Boulton RA, Green J, Trivedi U, Tauber E, Pannebakker BA, Ritchie MG, Shuker DM (2018) Differential gene expression is not required for facultative sex allocation: a transcriptome analysis of brain tissue in the parasitoid wasp Nasonia vitripennis. Royal Society Open Science 5, 171718 (10.1098/rsos.171718).
8 6. De la Filia AG, Andrewes S, Clark JM, Ross L (2018) The unusual reproductive system of head and body lice (Pediculus humanus). Medical and Veterinary Entomology 32, 226-234. (10.1111/mve.12287) 7. Dugdale HL, Richardson DS (2018) Heritability of telomere variation: it’s all about the environment! Philosophical Transactions of the Royal Society B 373, 20160450. (10.1098/rstb.2016.0450) 8. Fields PD, Obbard DJ, McTaggart SJ, Galimov Y, Little TJ, Ebert D (2018) Mitogenome phylogeographic analysis of a planktonic crustacean. Molecular Phylogenetics and Evolution 129, 138-148. (10.1016/j.ympev.2018.06.028) 9. Fisher MC, Pria Ghosh, Jennifer M. G. Shelton, Kieran Bates, Lola Brookes, Claudia Wierzbicki, Gonçalo M. Rosa, Rhys A. Farrer, David M. Aanensen, Mario Alvarado-Rybak, Arnaud Bataille, Lee Berger, Susanne Böll, Jaime Bosch, Frances C. Clare, Elodie Courtois, Angelica Crottini, Andrew A. Cunningham, Thomas M. Doherty-Bone, Fikirte Gebresenbet, David J. Gower, Jacob Höglund, Timothy Y. James, Thomas S. Jenkinson, Tiffany A. Kosch, Carolina Lambertini, Anssi Laurila, Chun-Fu Lin, Adeline Loyau, An Martel, Sara Meurling, Claude Miaud, Pete Minting, Serge Ndriantsoa, Frank Pasmans, Tsanta Rakotonanahary, Falitiana C. E. Rabemananjara, Luisa P. Ribeiro, Dirk S. Schmeller, Benedikt R. Schmidt, Lee Skerratt, Freya Smith, Claudio Soto- Azat, Giulia Tessa, Luís Felipe Toledo, Andrés Valenzuela-Sánchez, Ruhan Verster, Judit Vörös, Bruce Waldman, Rebecca J. Webb, Che Weldon, Emma Wombwell, Kelly R. Zamudio, Joyce E. Longcore, Trenton W. J. Garner. (2018) Development and worldwide use of non-lethal, and minimal population-level impact, protocols for the isolation of amphibian chytrid fungi. Scientific Reports 8, 7772. (10.1038/s41598-018-24472-2) 10. Lackmann F, Belikov S, Burlacu E, Granneman S, Wieslander L (2018) Maturation of the 90S pre-ribosome requires Mrd1 dependent U3 snoRNA and 35S pre-rRNA structural rearrangements. Nucleic Acids Research 46, 3692–3706. (10.1093/nar/gky036) 11. McMullan M, Rafiqi M, Kaithakottil G, Clavijo BJ, Bilham L, Orton E, Percival-Alwyn L, Ward BJ, Edwards A, Saunders DGO, Garcia Accinelli G, Wright J, Verweij W, Koutsovoulos G, Yoshida K, Hosoya T, Williamson L, Jennings P, Ioos R, Husson C, Hietala AM, Vivian-Smith A, Solheim H, MaClean D, Fosker, C Hall N, Brown JKM, Swarbreck D, Blaxter M, Downie JA, Clark MD (2018) The ash dieback invasion of Europe was founded by two genetically divergent individuals. Nat Ecol Evol 2, 1000-1008. (10.1038/s41559-018-0548-9) 12. Moran PA, Pascoal S, Cezard T, Risse JE, Ritchie MG, Bailey NW (2018) Opposing patterns of intraspecific and interspecific differentiation in sex chromosomes and autosomes. Molecular Ecology 27, 3905-3924. (10.1111/mec.14725) 13. Nicholls JA, Schönrogge K, Preuss S, Stone GN (2018) Partitioning of herbivore hosts across time and food plants promotes diversification in the Megastigmus dorsalis oak gall parasitoid complex. Ecology and Evolution 8, 1300–1315. (10.1002/ece3.3712) 14. O'Hanlon SJ, Rieux A, Rhys A. Farrer, Gonçalo M. Rosa, Bruce Waldman, Arnaud Bataille, Tiffany A. Kosch, Kris Murray, Balázs Brankovics, Matteo Fumagalli, Michael D. Martin, Nathan Wales, Mario Alvarado-Rybak, Kieran A. Bates, Lee Berger, Susanne Böll, Lola Brookes, Frances Clare, Elodie A. Courtois, Andrew A. Cunningham, Thomas M. Doherty-Bone, Pria Ghosh, David J. Gower, William E. Hintz, Jacob Höglund, Thomas S. Jenkinson, Chun-Fu Lin, Anssi Laurila, Adeline Loyau, An Martel, Sara Meurling, Claude Miaud, Pete Minting, Frank Pasmans, Dirk Schmeller, Benedikt R. Schmidt, Jennifer M. G. Shelton, Lee F. Skerratt, Freya Smith, Claudio Soto-Azat, Matteo Spagnoletti, Giulia Tessa, Luís Felipe Toledo, Andrés Valenzuela-Sánchez, Ruhan Verster, Judit Vörös, Rebecca J. Webb, Claudia Wierzbicki, Emma Wombwell, Kelly R. Zamudio, David M. Aanensen, Timothy Y. James, M. Thomas P. Gilbert, Ché Weldon, Jaime Bosch, François Balloux, Trenton W. J. Garner, Fisher MC (2018) Recent Asian origin of chytrid fungi causing global amphibian declines Science 360, 621-627. (10.1126/science.aar1965) 15. Parker DJ, Wiberg RAW, Trivedi U, Tyukmaeva VI, Gharbi K, Butlin RK, Hoikkala A, Kankare M, Ritchie MG (2018) Inter- and intra-specific genomic divergence in Drosophila montana shows evidence for cold adaptation. Genome Biology & Evolution 10, 2086-2101. (10.1093/gbe/evy147) 16. Price J, Harrison MC, Hammond RL, Adams S, Gutierrez-Marcos JF, Mallon EB (2018) Alternative splicing associated with phenotypic plasticity in the bumble bee Bombus terrestris Molecular Ecology 27, 1036-1043. (10.1111/mec.14495)
9 17. Selvaraj BT, Livesey MR, […] Chandran S (2018) C9ORF72 repeat expansion causes vulnerability of motor neurons to Ca2+-permeable AMPA receptor-mediated excitotoxicity. Nature Communications 9, 347. (10.1038/s41467-017-02729-0) 18. Smith SL, Senn HV, Pérez-Espona S, Wyman MT, Heap E, Pemberton JM (2018) Introgression of exotic Cervus (nippon and canadensis) into red deer (Cervus elaphus) populations in Scotland and the English Lake District. Ecology and Evolution 8, 2122-2134. (10.1002/ece3.3767) 19. Tills O, Truebano M, Feldmeyer B, Pfenninger M, Morgenroth H, Schell T, Rundle SD (2018) Transcriptomic responses to predator kairomones in embryos of the aquatic snail Radix balthica. Ecology and Evolution 31, 79–12. (10.1002/ece3.4574) 20. Valenzuela-Sánchez A, O'Hanlon SJ, Alvarado-Rybak M, Uribe-Rivera DE. Cunningham AA, Fisher MC, Soto-Azat C (2017) Genomic epidemiology of the emerging pathogen Batrachochytrium dendrobatidis from native and invasive amphibian species in Chile. Transboundary and Emerging Diseases. 00:1. (10.1111/tbed.12775) 21. Young R, Bush SJ, Lefevre L, McCulloch MEB, Lisowski ZM, Muriuki C, Waddell LA, Sauter KA, Pridans C, Clark EL, Hume DA (2018) Species-specific transcriptional regulation of genes involved in nitric oxide production and arginine metabolism in macrophages. ImmunoHorizons 2, 27-37. (10.4049/immunohorizons.1700073) 22. Wang X, Gussarova G, Ruhsam M, de Vere N, Metherell C, Hollingsworth PM, Twyford AD (2018) DNA barcoding a taxonomically complex hemiparasitic genus reveals deep divergence between ploidy levels but lack of species-level resolution. AoB PLANTS 10, ply026 (10.1093/aobpla/ply026)
[NBAF-L]
1. Adriaenssens EM, Farkas K, Harrison C, Jones DL, Allison HE, McCarthy AJ (2018) Viromic analysis of wastewater input to a river catchment reveals a diverse assemblage of RNA viruses. mSystems 3, e00026-18. (10.1128/mSystems.00025-18) 2. Bray AW, Stewart DI, Courtney R, Rout SP, Humphreys PN, Mayes WM, Burke IT (2018) Sustained bauxite residue rehabilitation with gypsum and organic matter 16 years after initial treatment. Environmental Science & Technology 52, 152–161. (10.1021/acs.est.7b03568) 3. Gaither MR, Gkafas GA, de Jong M, Sarigol F, Neat F, Regnier T, Moore D, Grӧcke DR, Hall N, Liu X, Kenny J, Lucaci A, Hughes M, Haldenby S, Hoelzel AR (in press) Genomics of habitat choice and adaptive evolution in the deep sea. Nature Ecology & Evolution 2, 680-687. (10.1038/s41559-018-0482-x) 4. Grébert T, Doré H, Partensky F, Farrant GK, Boss E, Picheral M, Guidi L, Pesant S, Scanlan DJ, Wincker P, Acinas SG, Kehoe DM, Garczarek L (2018) Light color acclimation: a key process in the global ocean distribution of Synechococcus cyanobacteria. Proceedings of the National Academy of Sciences of the United States of America 115, E2010-2019. (10.1073/pnas.1717069115) 5. Hicks N, Liu X, Gregory R, Kenny J, Lucaci A, Lenzi L, Paterson DM, Duncan KR (2018) Temperature driven changes in benthic bacterial diversity influences biogeochemical cycling in coastal sediments. Frontiers in Microbiology 9, 1730. (10.3389/fmicb.2018.01730) 6. Jones JC, Fruciano C, Marchant J, Hildebrand F, Forslund K, Bork P, Engel P, Hughes WOH (2018) The gut microbiome is associated with behavioural task in honey bees. Insectes Soc 65, 419-429 (10.1007/s00040-018-0624-9) 7. Jones JC, Fruciano C, Hildebrand F, Al Toufailia H, Balfour N, Bork P, Engel P, Ratnieks FLW, Hughes WOH (2018) Gut microbiota composition is associated with environmental landscape in honey bees. Ecology and Evolution 8, 441-451. (10.1002/ece3.3597) 8. Landsberger M, Gandon S, Meaden S, Rollie C, Chevallereau A, Chabas H, Buckling A, Westra ER, van Houte S (2018) anti-CRISPR phages cooperate to overcome CRISPR-Cas Immunity. Cell 174, 908-916.e12. (10.1016/j.cell.2018.05.058). 9. Livingstone PG, Morphew RM, Whitworth DE (2018) Genome sequencing and pan-genome analysis of 23 corallococcus spp. strains reveal unexpected diversity, with particular plasticity of predatory gene sets. Front. Microbiol. 9, 3187. (10.3389/fmicb.2018.03187)
10 10. Moody SC, Dudley E, Hiscox J, Boddy L, Eastwood DC (2018) Interdependence of primary metabolism and xenobiotic mitigation characterizes the proteome of Bjerkandera adusta during wood decomposition. Applied and Environmental Microbiology 84, e01401-17. (10.1128/AEM.01401-17) 11. Newsham KK, Garnett MH, Robinson CH, Cox FG (2018) Discrete taxa of saprotrophic fungi respire different ages of carbon from Antarctic soils. Scientific Reports 8, 7866. (10.1038/s41598- 018-25877-9) 12. Niepoth N Ellers J, Henry LM (2018) Symbiont interactions with non-native hosts limit the formation of new symbioses. BMC Evolutionary Biology 18, 27. (10.1186/s12862-018-1143-z) 13. Nowell RW, Almeida P, Wilson C, Smith T, Fontanero D, Crisp A (…) Barraclough T (2018) Comparative genomics of bdelloid rotifers: Insights from desiccating and nondesiccating species. PLoS Biology 16, e2004830. (10.1371/journal.pbio.2004830) 14. Pascoal S, Liu X, Fang Y, Paterson S, Ritchie MG, Rockliffe N, Zuk M, Bailey NW (2018) Increased socially-mediated plasticity in gene expression accompanies rapid evolution. Ecology Letters 21, 546-556. (10.1111/ele.12920) 15. Pittera J, Jouhet J, Breton S, Garczarek L, Partensky F, Maréchal E, Nguyen NA, Doré H, Ratin M, Pitt FD, Scanlan DJ, Six C (2018) Thermoacclimation and genome adaptation of the membrane lipidome in marine Synechococcus. Environmental Microbiology 20, 612-631. (10.1111/1462-2920.13985) 16. Puxty RJ, Evans DJ, Millard AD, Scanlan DJ (2018) Energy limitation of cyanophage development: implications for marine carbon cycling. The ISME Journal 12, 1273-1286. (10.1038/s41396-017-0043-3) 17. Taylor CH, Wanelik KM, Friberg IM, Lowe A, Hall AJ, Ralli C, (…) Bradley JE (2018) Physiological, but not fitness, effects of two interacting haemoparasitic infections in a wild rodent. International journal for Parasitology 48, 463-471. (10.1016/j.ijpara.2017.11.006) 18. Vidal-Dura A, Burke IT, Mortimer RJG, Stewart DI (2018) Diversity patterns of benthic bacterial communities along the salinity continuum of the Humber estuary (UK). Aquatic Microbial Ecology 81, 277-291. (10.3354/ame01875) 19. Wanelik KM, Begon M, Birtles RJ, Bradley JE, Friberg IM, Jackson JA (…) Paterson S (2018) A candidate tolerance gene identified in a natural population of field voles (Microtus agrestis). Molecular Ecology 27, 1044-1052. (10.1111/mec.14476) 20. Williams BAP, Hamilton KM, Jones DM, Bass D (2018) Group-specific environmental sequencing reveals high levels of ecological heterogeneity across the microsporidian radiation. Environmental Microbiology Reports 10, 328-336. (10.1111/1758-2229.12642) 21. Wilson C, Nowell R, Barraclough T (2018) Cross-contamination explains “Inter and intraspecific horizontal genetic transfers” between asexual bdelloid rotifers. Current Biology 28, 2436– 2444.e14 (10.1016/j.cub.2018.05.070)
[NBAF-S] 1. Benton CH, Delahay RJ, Smith FAP, Robertson A, McDonald RA, Young AJ, Burke TA, Hodgson D (2018) Inbreeding intensifies sex- and age-dependent disease in a wild mammal. Animal Ecology 87, 1500-11. (10.1111/1365-2656.12878) 2. Bhattacharyya S, Dawson DA, Hipperson H, Ishtiaq F (2018) A diet rich in C3 plants reveals the sensitivity of an alpine mammal to climate change. Molecular Ecology. (10.1111/mec.14842) 3. Bradshaw PJ, Broderick AC, Carreras C, Fuller WJ, Snape RTE, Wright LI, Godley BJ (2018) Defining conservation units with enhanced molecular tools to reveal fine scale structuring among Mediterranean green turtle rookeries. Biological Conservation, 222, 253-260. (10.1016/j.biocon.2017.12.014) 4. Buxton A, Groombridge J, Griffiths R (2018) Comparison of two Citizen Scientist Methods for Collecting Pond Water Samples for Environmental DNA Studies. Citizen Science: Theory and Practice 3, 2. (10.5334/cstp.151) 5. Buxton A, Groombridge J, Griffiths R (2018) Seasonal variation in environmental DNA detection in sediment and water samples. PlosOne 13, e0191737. (10.1371/journal.pone.0191737)
11 6. Cunningham C, Parra JE, Coals L, Beltrán M, Zefania S, Székely T (2018) Social interactions predict genetic diversification: an experimental manipulation in shorebirds. Behavioral Ecology 29, 609–618. (10.1093/beheco/ary012). 7. Dunn JC, Stockdale JE, Moorhouse-Gann RJ, McCubbin A, Hipperson H, Morris AJ, Grice PV, Symondson WOC (2018) The decline of the turtle dove: dietary associations with body condition and competition with other columbids analysed using high throughput sequencing. Molecular Ecology 27, 3386-3407. (10.1111/mec.14766) 8. Field JP, Accleton C, Foster WA (2018) Crozier’s effect and the acceptance of intraspecific brood parasites. Current Biology 28, 3267-3272. (10.1016/j.cub.2018.08.014) 9. Fish KE, Boxall JB (2018) Biofilm microbiome (re)growth dynamics in drinking water distribution systems are impacted by chlorine concentration. Frontiers in Microbiology 9, 2519. (10.3389/fmicb.2018.02519) 10. Green JP, Hatchwell BJ (2018) Inclusive fitness consequences of dispersal decisions in cooperatively breeding bird, the long-tailed tit (Aegithalos caudatus). Proceedings of the National Academy of Sciences 115, 12011-12016. (10.1073/pnas.1815873115) 11. Grinsted L, Field J (2018) Predictors of nest growth: diminishing returns for subordinates in the paper wasp Polistes dominula. Behavioral Ecology & Sociobiology 72, 88. (10.1007/s00265-018- 2502-x) 12. Khwaja N, Preston SAJ, Briskie JV, Hatchwell BJ (2018) Testing the predictions of sex allocation hypotheses in a dimorphic cooperative breeder. Ecology and Evolution 8, 3693- 3701. (10.1002/ece3.3934) 13. Leedale AE, Sharp SP, Simeoni M, Robinson EJH & Hatchwell BJ (2018) Fine-scale genetic structure and helping decisions in a cooperatively breeding bird. Molecular Ecology 27, 1714- 1726. (10.1111/mec.14553) 14. Meade LC, Dinneen D, Kad R, Lynch DM, Fowler K, Pomiankowski A (2018) Ejaculate sperm number compensation in stalk-eyed flies carrying a selfish meiotic drive element. Heredity (10.1038/s41437-018-0166-y) 15. Moorhouse-Gann RJ, Dunn JC, de Vere N, Goder M, Cole N, Hipperson H, Symondson WOC (2018) New universal ITS2 primers for high-resolution herbivory analyses using DNA metabarcoding in both tropical and temperate zones. Scientific Reports 8, 8542. (10.1038/s41598- 018-26648-2)
Theses
1. Armstrong C (2018) PhD Thesis (University of East Anglia) The role of pathogens in shaping genetic variation within and among populations in an island bird. (NBAF-ES) 2. Bain S (2018) PhD Thesis (University of Edinburgh) Epigenetic mechanisms underlying Paternal Genome Elimination (NBAF-E) 3. Belen Arias M (2018) PhD Thesis (Imperial College) Global and local population genetics of the Mediterranean fruit fly, Ceratitis capitata, an invasive pest of fruit crops. (uk.bl.ethos.762167) (NBAF-E) 4. Bradbury J (2017) PhD Thesis (University of Birmingham) Computational hypothesis generation with genome-wide metabolic reconstructions: in-silico prediction of metabolic changes in the freshwater model organism Daphnia to environmental stressors (uk.bl.ethos.760328) (NBAF-B) 5. Britton A (2018) PhD Thesis (University College London) Assessing human impacts on cichlid fish communities from the biodiversity hotspot Lake Tanganyika. (NBAF-S) 6. Buxton A (2018) PhD thesis (University of Kent) Population assessment of great crested newts using environmental DNA. (NBAF-S) (uk.bl.ethos.754840) 7. Curran EV (2018) PhD Thesis (University of Sheffield) An exploration of the parallel evolution of iridescent structural colour in Heliconius butterflies. (uk.bl.ethos.762565) (NBAF-E) 8. de la Filia A (2018) PhD Thesis (University of Edinburgh) Intragenomic conflict under paternal genome elimination. (NBAF-E) 9. Devaynes A (2018) PhD Thesis (Edge Hill University) Bacterial and ectoparasitic challenges imposed on Cyanistes caeruleus (blue tit) during nesting. (uk.bl.ethos.761610) (NBAF-S)
12 10. Griffiths SM (2018) PhD Thesis (Manchester Metropolitan University) Molecular approaches in conservation and ecology research in marine sponges. (uk.bl.ethos.740478) (https://e- space.mmu.ac.uk/620378/) (NBAF-L) 11. Kerth C (2018) PhD thesis (University of Sheffield) RAD and the demographic history of a hybrid zone - new insights into the evolution of hybrid sterility. (NBAF-E) (uk.bl.ethos.745696) 12. Lane JV (2018) PhD Thesis (University of Leeds) Three-dimensional foraging ecology of gannets. (uk.bl.ethos.766447) (NBAF-S) 13. Leedale AE (2018) PhD thesis (University of Sheffield) Function and mechanisms of kin recognition in long-tailed tits. (NBAF-S) (uk.bl.ethos.759842) 14. Maher KH (2018) PhD thesis (University of Bath) Genomic basis of adaptation in avian systems. (NBAF-S) 15. Moorhouse-Gann RJ (2018) PhD Thesis (Cardiff University) Ecological replacement as a restoration tool: disentangling the impacts and interactions of Aldabran giant tortoises (Aldabrachelys gigantean) using DNA metabarcoding. (NBAF-S) 16. Mordue S (2018) PhD Thesis (Newcastle University) How does the spatial and social Dynamics of the Natterer’s bat Myotis nattereri affect disease transmission and conservation? (NBAF-S) 17. O’Leary J (2018) PhD thesis (Cardiff University) Multi-dimensional mycelia interactions. (uk.bl.ethos.742895) (NBAF-B) 18. Orland C (2018) PhD thesis (University of Cambridge) Assembly and functioning of microbial communities along terrestrial resource gradients in boreal lake sediments. (uk.bl.ethos.763686) https://doi.org/10.17863/CAM.32278 (NBAF-S) 19. Ottonelli Rossato D (2018) PhD Thesis (Universidade Federal do Rio grande do Sul, Brazil) Dispersal, the key process to modulate ecological and evolutionary dynamics of butterflies (NBAF-ES) 20. Palmer WH (2018) PhD Thesis (University of Edinburgh) Evolution and genetics of antiviral immunity in Drosophila. (uk.bl.ethos.756976) (NBAF-E) 21. Recknagel H (2018) PhD Thesis (University of Glasgow) Environmental constraints and genetic basis for the evolution of viviparity. (NBAF-EL) (uk.bl.ethos.754344) 22. Saxon AD (2018) PhD thesis (University of Bristol) The effects of ecological and genetic variation on fitness in the rainforest fruit fly Drosophila birchii. NBAF-ES (uk.bl.ethos.752809) 23. Shutt JD (2018) PhD Thesis (University of Edinburgh) Expanding a classic woodland food chain into a geographically variable food web. (uk.bl.ethos.743785) (NBAF-E)
Chapters
1. Crombie AT, Mejia-Florez NL, McGenity TJ, Murrell JC (2018) Genetics and ecology of isoprene degradation. In: Rojo F. (eds) Aerobic utilization of hydrocarbons, oils and lipids. Handbook of hydrocarbon and lipid microbiology. Springer, Cham (10.1007/978-3-319-39782-5_27-1) (NBAF- EL)
Other
1. Adriaenssens EM, Farkas K, McDonald J, Allison HE, Jones D, McCarthy A (2018) talk: Metaviromics for the detection of pathogenic viruses from source to sink. VEGA Symposium at DOE JGI user meeting, San Francisco, USA, March 2018 (NBAF-L) 2. Douterelo I, Calero C, Husband SP (2018) Conference proceedings: Monitoring biofilm communities in operational drinking water distribution systems and the impact on water quality. Proceedings of the 1st International Water DSA / CCWI Joint Conference in July 23-25 in Kingston, Ontario, Canada. (NBAF-S) 3. Douterelo (2018). Poster and Talk. Applied biofilm ecology to inform management of drinking water distribution systems. International Society of Microbial Ecology (ISME 17). Leipzig, Germany (NBAF-S).
13 4. Douterelo (2018). Talk. TWENTY 65 Conference. Manchester UK. Using advances in genetics for countering the effects of climate change in drinking water systems. (NBAF-S) 5. Douterelo, S. Husband, K. E. Fish, C. Calero and J. Boxall (2017). Talk. Water Quality Technology Conference, Portland, Oregon. Metagenomics put to work: use of microbial genes to understand drinking water distribution systems. (NBAF-S) 6. Garrett LJH, Myatt JP, Sadler JP, Dawson DA, Colbourne JK, Dickey RC, Weber SB, Reynolds SJ (2018) Poster: Within-population genetic mixing strategies drive panmixia in a highly social seabird. Evolution Montpellier 2018: Second Joint Congress on Evolutionary Biology, Corum Convention Center, Montpellier, France. 19–22nd August 2018. (NBAF-S) 7. Gervais L, Perrier C, Bernard M, Merlet J, Pemberton J, Pujol B, Quéméré E. RAD-sequencing for estimating GRM-based heritability in the wild: a case study in roe deer (2018) bioRXiv. (10.1101/496083) (NBAF-E) 8. Lohse K (2018) talk: Modelling the genomic landscape of divergence and gene flow, Population genetics group meeting Bristol. (NBAF-E) 9. Lohse K (2018) talk: Modelling the genomic landscapes of divergence and gene flow, ESEB meeting Montpellier, 08/2018. (NBAF-E) 10. Lohse K (2018) talk: Charting the genomic landscapes of speciation – a tale of ugly statistics and pretty butterflies, Masaryk University Life Sciences Seminar Series, Brno, 10/2018. (NBAF-E) 11. Mumby H (2018) talk: Genetic and social relationships between elephants in the Associated Private Nature Reserve. Savanna Science Network Meeting. (NBAF-S) 12. Watson GJ, Functional Ecology spotlight on Clark M (2018) “Winners” and “losers” in the Anthropocene: understanding adaptation through phenotypic plasticity. Functional Ecology 32, 1906-1907 (10.1111/1365-2435.13108) (Joint NBAF-ES)
13. Kender; the data are being put towards a NERC grant proposal for July 2019 round. (NBAF- L831)
14 2017
[Joint]
1. Crombie AT, Emery H, McGenity TJ, Murrell JC (2017) Draft genome sequences of three terrestrial isoprene-degrading Rhodococcus strains. Genome Announcements 5, e01256-17. (10.1128/genomeA.01256-17) (NBAF-EL) 2. dos Remedios N, Küpper C, Székely T, Baker N, Versfeld W, Lee PLM (2017) Genetic isolation in an endemic African habitat specialist. Ibis 159, 792–802. (10.1111/ibi.12520) (NBAF-ES) 3. Fecchio A, Svensson-Coelho M, Bell J, Ellis VA, Medeiros MC, Trisos CH, Blake JG, Loiselle BA, Tobias JA, Fanti R, Coffey ED, De Faria IP, Pinho JB, Felix G, Braga EM, Anciaes M, Tkach V, Bates J, Witt C, Weckstein JD, Ricklefs RE, Farias IP (2017) Host associations and turnover of haemosporidian parasites in manakins (Aves: Pipridae) Parasitology 144, 984–993. (10.1017/S0031182017000208) (NBAF-ES) 4. Lonsdale ZN, Lee KD, Kyriakidou M, Amarasinghe HE, Nathanael D, O'Connor CJ, Mallon EB (2017) Allele specific expression and methylation in the bumblebee, Bombus terrestris. PeerJ 5, e3798. (10.7717/peerj.3798) (NBAF-EL) 5. Pegoraro M, Marshall H, Lonsdale ZN, Mallon EB (2017) Do social insects support Haig's kin theory for the evolution of genomic imprinting? Epigenetics 12, 725–742. (10.1080/15592294.2017.1348445) (NBAF-EL)
[NBAF-B] 1. Calosi P, Melatunan S, Turner LM, Artioli Y, Davidson RL, Byrne JJ, Viant MR, Widdicombe S, Rundle SD (2017) Regional adaptation defines sensitivity to future ocean acidification. Nature Communications 8, 13994. (10.1038/ncomms13994) 2. Clark MS, Sommer U, Sihra JK, Thorne MAS, Morley SA, King M, Viant MR, Peck LS (2017) Biodiversity in marine invertebrate responses to acute warming revealed by a comparative multi- omics approach. Global Change Biology 23, 318–330. (10.1111/gcb.13357)
[NBAF-E]
1. Anderson C, Cunha L, Sechi P, Kille P, Spurgeon D (2017) Genetic variation in populations of the earthworm, Lumbricus rubellus, across contaminated mine sites. BMC Genetics 18, 97. (10.1186/s12863-017-0557-8) 2. Campos J, Qiu S, Guirao-Rico S, Bergero R, Charlesworth D (2017) Recombination changes at the boundaries of fully and partially sex-linked regions between closely related Silene species pairs. Heredity 118, 395–403. (10.1038/hdy.2016.113) 3. Coates CJ, Wyman M (2017) A denitrifying community associated with a major, marine nitrogen fixer. Environmental Microbiology 19, 4978–4992. (10.1111/1462-2920.14007) 4. Cook N, Trivedi U, Pannebakker BA, Blaxter M, Ritchie MG, Tauber E, Sneddon T, Shuker DM (2015) Oviposition but not sex allocation is associated with transcriptomic changes in females of the parasitoid wasp Nasonia vitripennis. G3: Genes, Genomes, Genetics 5, 2885–2892. (10.1534/g3.115.021220) 5. Cunha L, Thornber A, Kille P, Morgan AJ, Novo M (2017) A large set of microsatellites for the highly invasive earthworm Amynthas corticis predicted from low coverage genomes. Applied Soil Ecology 119, 152–155. (10.1016/j.apsoil.2017.05.029) 6. Eyres I, Duvaux L, Gharbi K, Tucker R, Hopkins D, Simon JC, Ferrari J, Smadja CM, Butlin RK (2017) Targeted re-sequencing confirms the importance of chemosensory genes in aphid host race differentiation. Molecular Ecology 26, 43–58. (10.1111/mec.13818) 7. Gruenheit N, Parkinson K, Stewart B, Howie JA, Wolf JB, Thompson CR (2017) A polychromatic 'greenbeard' locus determines patterns of cooperation in a social amoeba. Nature Communications 25, 14171. (10.1038/ncomms14171)
15 8. Hahn C, Genner MJ, Turner GF, Joyce DA (2017) The genomic basis of cichlid fish adaptation within the deepwater “twilight zone” of Lake Malawi. Evolution Letters 1, 184–198. (10.1002/evl3.20) 9. Jeffries DL, Copp GH, Maes G, Lawson Handley L, Hänfling B (2017) Genetic evidence challenges the native status of a threatened freshwater fish (Carassius carassius) in England. Ecology and Evolution 7, 2871–2882. (10.1002/ece3.2831). 10. Kim K-W, Bennison C, Hemmings N, Brookes L, Hurley LL, Griffith SC, Burke T, Birkhead TR, Slate J (2017) A sex-linked supergene controls sperm morphology and swimming speed in a songbird. Nature Ecology & Evolution 1, 1168–1176. (10.1038/s41559-017-0235-2) 11. Lohse K (2017) Come on feel the noise – from metaphors to null models. Journal of Evolutionary Biology 30, 1506–1508. (10.1111/jeb.13109) 12. Mable BK, Hagmann J, Kim S-T, Adam A, Kilbride E, Weigel D, Stift M (2017) What causes mating system shifts in plants? Arabidopsis lyrata as a case study. Heredity 118, 52–63 (10.1038/hdy.2016.99) 13. Mock T, Otillar RP, Strauss J et al (2017) Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature 541, 536–540. (10.1038/nature20803) 14. Pascoal S, Mendrok M, Wilson AJ, Hunt J, Bailey NW (2017) Sexual selection and population divergence II. Divergence in different sexual traits and signal modalities in field crickets (Teleogryllus oceanicus) Evolution 71, 1614–1626. (10.1111/evo.13239) 15. Schell T, Feldmeyer B, Schmidt H, Greshake B, Tills O, Truebano Garcia M, Rundle SD, Juraj Paule J, Ebersberger I, Pfenninger M (2017) An annotated draft genome for Radix auricularia (Gastropoda, Mollusca). Genome Biology and Evolution 9, 585–592. (10.1093/gbe/evx032) 16. Sobczyk MK, Smith JAC, Pollard AJ, Filatov DA (2017) Evolution of nickel hyperaccumulation and serpentine adaptation in the Alyssum serpyllifolium species complex. Heredity 118, 31–41. (10.1038/hdy.2016.93) 17. Stone GN, White SC, Csóka G, Melika G, Mutun S, Pénzes Z, Sadeghi SE, Schönrogge K, Tavakoli M, Nicholls JA (2017) Tournament ABC analysis of the western palaearctic population history of an oak gallwasp, Synergus umbraculus. Molecular Ecology 26, 6685–6703. (10.1111/mec.14372) 18. Szitenberg A, Salazar-Jaramillo L, Blok VC, Laetsch DR, Joseph S, Williamson VM, Blaxter ML, Lunt DH (2017) Comparative genomics of apomictic root-knot Nematodes: hybridization, ploidy, and dynamic genome change. Genome Biology and Evolution 9, 2844–2861. (10.1093/gbe/evx201) 19. Taylor ML, Rogers AD (2017) Primnoidae (Cnidaria: Octocorallia) of the SW Indian Ocean: new species, genus revisions and systematics. Zoological Journal of the Linnean Society 181, 70–97. (10.1093/zoolinnean/zlx003) 20. Timmermans MJTN, Thompson MJ, Collins S, Vogler AP (2017) Independent evolution of sexual dimorphism and female-limited mimicry in swallowtail butterflies (Papilio dardanus and P. phorcas) Molecular Ecology 26, 1273–1284. (10.1111/mec.14012) 21. Valderrama-Escallón E, Richardson JE, Kidner CA, Madriñán S, Stone GN (2017) Transcriptome mining for phylogenetic markers in a recently radiated genus of tropical plants (Renealmia L.f., Zingiberaceae). Molecular Phylogenetics and Evolution 119, 13–24. (10.1016/j.ympev.2017.10.001) 22. Younger JL, Kao D, Rogers AD, Gharbi K, Miller KJ, Hart T (2017) the challenges of detecting subtle population structure and its importance for the conservation of emperor penguins. Molecular Ecology 26, 3883–3897. (10.1111/mec.14172)
[NBAF-L] 1. Arriero E, Wanelik KM, Birtles RJ, Bradley JE, Jackson JA, Paterson S, Begon M (2017) From the animal house to the field: Are there consistent individual differences in immunological profile in wild populations of field voles (Microtus agrestis)? PLoS One 12, e0183450. (10.1371/journal.pone.0183450) 2. Bista I, Carvalho GR, Walsh K, Seymour M, Hajibabaei M, Lallias D, Christmas M, Creer S (2017) Annual time-series analysis of aqueous eDNA reveals ecologically relevant dynamics of lake ecosystem biodiversity. Nature Communications 8, 14087. (10.1038/ncomms14087)
16 3. Deiner K, Bik HM, Mächler E, Seymour M, Lacoursière-Roussel A, Altermatt F, Creer S, Bista I, Lodge DM, de Vere N, Pfrender ME, Bernatchez (2017) Environmental DNA metabarcoding: transforming how we survey animal and plant communities. Molecular Ecology 26, 5872–5895. (10.1111/mec.14350) 4. Fisher RM, Henry LM, Cornwallis CK, Kiers ET, West SA (2017) The evolution of host- symbiont dependence. Nature Communications 8, 15973. (10.1038/ncomms15973) 5. Fonseca VG, Sinniger F, Gaspar JM, Quince C, Creer S, Power DM, Peck LS, Clark MS (2017) Revealing higher than expected meiofaunal diversity in Antarctic sediments: a metabarcoding approach. Scientific Reports 7, 6074. (10.1038/s41598-017-06687-x) 6. Harrison E, Hall JPJ, Paterson S, Spiers AJ, Brockhurst MA (2017) Conflicting selection alters the trajectory of molecular evolution in a tripartite bacteria-plasmid-phage interaction. Molecular Ecology 26, 2757–2764. (10.1111/mec.14080) 7. Lidbury IDEA, Fraser T, Murphy ARJ, Scanlan DJ, Bending GD, Jones AME, Moore JD, Goodall A, Tibbett M, Hammond JP, Wellington EMH (2017) The “known” genetic potential for microbial communities to degrade organic phosphorus is reduced in low pH soils. Microbiology Open 6, e00474. (10.1002/mbo3.474). 8. Malik AA, Thomson BC, Whiteley AS, Bailey M, Griffiths RI (2017) Bacterial physiological adaptations to contrasting edaphic conditions identified using landscape scale metagenomics. mBio 8, e00799-17. (10.1128/mBio.00799-17) 9. Morley D, Broniewski JM, Westra ER, Buckling A, van Houte S (2017) Host diversity limits the evolution of parasite local adaptation. Molecular Ecology 26, 1756–1763. (10.1111/mec.13917) 10. Plan D, Sanz L, Whiteley G, Wagstaff SC, Harrison RA, Casewell NR, Calvete JJ (2017) What killed Karl Patterson Schmidt? Combined venom gland transcriptomic, venomic and antivenomic analysis of the South African green tree snake (the boomslang), Dispholidus typus. Biochinica et Biophysica Acta 18691, 814–823. (10.1016/j.bbagen.2017.01.020) 11. Robertson FM, Gundappa MK, Grammes F, Hvidsten TR, Redmond AK, Lien S, Martin SAM, Holland PWH, Sandve SR, Macqueen DJ (2017) Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification. Genome Biology 18, 111. (10.1186/s13059-017-1241-z) 12. Thomason AG, Begon M, Bradley JE, Paterson S, Jackson JA (2017) Endemic hantavirus in field voles, northern England. Emerging Infectious Diseases 23, 1033–1035. (10.3201/eid2306.161607) 13. Veltsos P, Fang Y, Cossins AR, Snook RR, Ritchie MG (2017) Mating system manipulation and the evolution of sex-biased gene expression in Drosophila. Nature Communications 8, 2072. (10.1038/s41467-017-02232-6)
[NBAF-S]
1. Almalki M, Kupán K, Carmona-Isunza MC, Lopez P, Veiga A, Kosztolányi A, Székely T, Küpper T (2016) Morphological and genetic differentiation among Kentish plover Charadrius alexandrinus populations in Macaronesia. Ardeola 64, 3–16. (10.13157/arla.64.1.2017.ra1) 2. Ball AD, van Dijk RE, Lloyd P, Pogány A, Dawson DA, Dorus S, Bowie RCK, Burke T, Székely T (2017) Levels of extra-pair paternity are associated with parental care in penduline tits (Remizidae). Ibis 159, 449–455. (10.1111/ibi.12446). 3. Barani-Beiranvanda H, Aliabadiana M, Irestedt M, Quc Y, Darvish J, Székely T, van Dijk RE, Ericson PGP (2017) Phylogeny of penduline tits inferred from mitochondrial and microsatellite genotyping. Journal of Avian Biology 48, 932–940 (10.1111/jav.01163). 22. Booth Jones KA, Nicoll MAC, Raisin C, Dawson DA, Hipperson H, Horsburgh GJ, Groombridge JJ, Ismar SMH, Sweet P, Jones CG, Tatayah, V, Ruhomaun K, Norris K (2017) Widespread gene flow between oceans in a pelagic seabird species complex. Molecular Ecology 26, 5716–5728. (10.1111/mec.14330). 23. Buxton A, Groombridge J, Griffiths R (2017) Is the detection of aquatic environmental DNA influenced by substrate type?. PLOS ONE 12, e0183371. (10.1371/journal.pone.0183371) 24. Buxton A, Groombridge J, Zakaria N, Griffiths R (2017) Seasonal variation in environmental DNA in relation to population size and environmentalfactors. Scientific Reports 7, 46294. (10.1038/srep46294)
17 4. Carmona-Isunza MC, Ancona, SI, Székely T, Ramallo-González AP, Cruz-López M, Serrano- Meneses MA, Küpper C (2017) Adult sex ratio and operational sex ratio exhibit different temporal dynamics in the wild. Behavioral Ecology 28, 523–532. (10.1093/beheco/arw183) 5. Chapman NC, Siriwat P, Howie J, Towlson A, Bellamy L, Fowler K, Pomiankowski A (2017) The complexity of mating decisions in stalk-eyed flies. Ecology and Evolution 7, 6659– 6668. (10.1002/ece3.3225) 6. Cruz-López M, Eberhart-Phillips LJ, Fernández G, Beamonte-Barrientos R, Székely T, Serrano- Meneses MA, Küpper C (2017) The plight of a plover: viability of an important snowy plover population with flexible brood care in Mexico. Biological Conservation 209, 440–448. (10.1016/j.biocon.2017.03.009) 7. Dalton N, Horsburgh GJ, Dawson DA (2017) The characterisation of microsatellite markers reveals tetraploidy in the Greater Water Parsnip, Sium latifolium (Apiaceae). BMC Research Notes 10, 204. (10.1186/s13104-017-2528-6) 8. D’Urban Jackson J, dos Remedios N, Maher KH, Zefania S, Haig S, Oyler-McCance S, Blomqvist D, Burke T, Bruford MW, Székely T, Küpper C (2017) Polygamy slows down population divergence in shorebirds. Evolution 71, 1313–1326. (10.1111/evo.13212) 9. Eberhart-Phillips LJ, Küpper C, Miller TEX, Cruz-López M, Maher KH, dos Remedios N, Stoffel MA, Hoffman JI, Krüger O, Székely T (2017) Sex-specific early survival drives adult sex ratio bias in snowy plovers and impacts mating system and population growth. Proceedings of the National Academy of Sciences of the United States of America 114, E5474–E5481. (10.1073/pnas.1620043114) 10. Edwards HA, Burke T, Dugdale HL (2017) Repeatable and heritable behavioural variation in a wild cooperative breeder. Behavioral Ecology 28, 668–676. (10.1093/beheco/arx013) 11. Fish K, Osborn AM, Boxall JB (2017) Biofilm structures (EPS and bacterial communities) in drinking water distribution systems are conditioned by hydraulics and influence discolouration. Science of the Total Environment 593–594, 571–580. (10.1016/j.scitotenv.2017.03.176) 12. Garrett LJH, Dawson DA, Horsburgh GJ, Reynolds SJ (2017) A multiplex marker set for microsatellite typing and sexing of sooty terns Onychoprion fuscatus. BMC Research Notes 10, 756. (10.1186/s13104-017-3084-9) 13. Grinsted L, Field J (2017). Biological markets in cooperative breeders: quantifying outside options. Proceedings of the Royal Society of London Series B 284, 20170904. (10.1098/rspb.2017.0904) 14. Hamilton PB, Rolshausen G, Webster TMU, Tyler CR (2017) Adaptive capabilities and fitness consequences associated with pollution exposure in fish. Proceedings of the Royal Society of London Series B 372, 20160042. (10.1098/rstb.2016.0042) 15. Holland LP, Jenkins TL, Stevens JR (2017) Contrasting patterns of population structure and gene flow facilitate exploration of connectivity in two widely distributed temperate octocorals. Heredity 119, 35–48. (10.1038/hdy.2017.14) 16. Höglund J, Wang B, Saether SA, Blom M, Fiske P, Halvarsson P, Horsburgh G, Burke T, Kålås JA, Ekblom R (2017) Blood transcriptomes and de novo identification of candidate loci for mating success in lekking great snipe (Gallinago media). Molecular Ecology 26, 3458–3471. (10.1111/mec.14118) 17. Khwaja N, Hatchwell BJ, Green JP (2017) Sex allocation patterns across cooperatively breeding birds do not support the repayment hypothesis. American Naturalist 190, 547–556. (10.1086/693532) 18. Khwaja N, Preston SAJ, Hatchwell BJ, Briskie JV, Winney IS, Savage JL (2017) Flexibility but no coordination of visits in provisioning riflemen (Acanthisitta chloris). Animal Behaviour 125, 25–31. (10.1016/j.anbehav.2016.12.021) 19. King HC, Khera-Butler T, James P, Oakley BB, Erenso G, Aseffa A, Knight R, Wellington EM, Courtenay O (2017) Environmental reservoirs of pathogenic mycobacteria across the Ethiopian biogeographical landscape. PLoS One 12, e0173811. (10.1371/journal.pone.0173811) 20. Maher KH, Eberhart-Phillips L, Kosztolányi A, Dos Remedios N, Carmona-Isunza MC, Cruz- López M, Zefania S, James St Clair J, AlRashidi M, Weston MA, Serrano-Meneses MA, Krüger O, Hoffman JI, Székely T, Burke T, Küpper C (2017) High fidelity: extra-pair fertilisations in eight Charadrius plover species are not associated with parental relatedness or social mating system. Journal of Avian Biology 48, 910–920. (10.1111/jav.01263)
18 21. Mátics R, Hoffmann, Gy, Frantz AC, Dawson DA, Klein Á (2017) Demographic decline and detection of genetic bottleneck in a population of barn owl, Tyto alba, in Hungary. Journal of Ornithology 158, 811–821. (10.1007/s10336-017-1433-z) 22. Mira O, Sánchez-Prieto CB, Dawson DA, Burke T, Tinaut A, Martínez JG (2017) Parnassius apollo nevadensis: identification of recent population structure and source–sink dynamics. Conservation Genetics 18, 837–851. (10.1007/s10592-017-0931-0) 23. Moura RF, Dawson DA, Monnerat Nogueira D (2017) The use of microsatellite markers in Neotropical studies of wild birds: a literature review. Annals of the Brazilian Academy of Sciences 89, 145–154. (10.1590/0001-3765201620160378) 24. Murray RL, Herridge EJ, Ness RW, Bussière L (2017) Are sex ratio distorting endosymbionts responsible for mating system variation among dance flies (Diptera: Empidinae)? PLoS One 12, e0178364. (10.1371/journal.pone.0178364) 25. Pantoja PO, Simon-Porcar VI, Puzey JR, Vallejo-Marin M (2017) Genetic variation and clonal diversity in introduced populations of Mimulus guttatus assessed by genotyping at 62 single nucleotide polymorphism loci. Plant Ecology & Diversity 10, 5–15. (10.1080/17550874.2017.1287785) 26. Parsons PJ, Couchoux C, Horsburgh GJ, Dawson DA, Field J (2017) Identification of 24 new microsatellite loci in the sweat bee Lasioglossum malachurum (Hymenoptera: Halictidae). BMC Research Notes 10, 753. (10.1186/s13104-017-3089-4) 27. Phillips KP, Jorgensen TH, Jolliffe KG, Richardson DS (2017) Evidence of opposing fitness effects of parental heterozygosity and relatedness in a critically endangered marine turtle? Journal of Evolutionary Biology 30, 1953–1965. (10.1111/jeb.13152) 28. Reynolds SJ, Galbraith JA, Smith JA, Jones DN (2017) Garden bird feeding: insights and prospects from a north-south comparison of this global urban phenomenon. Frontiers in Ecology and Evolution 5, 24. (10.3389/fevo.2017.00024) 29. Vincze O, Kosztolányi A, Barta Z, Küpper C et al (2017) Parental cooperation in a changing climate: fluctuating environments predict shifts in care division. Global Ecology and Biogeography 26, 347–358. (10.1111/geb.12540)
Theses
1. Boylan AA (2017) PhD Thesis (University of Leeds) Natural and enhanced retardation of carbon-14 in contaminated groundwater. (NBAF-L) 2. Bradshaw PJ (2017) PhD Thesis (University of Exeter) Investigating variation in the life-history strategy of marine turtles. (NBAF-S) 3. Clucas GV (2017) PhD Thesis (University of Southampton) Gene flow and glacial history: investigating the processes shaping the population structure of penguins in the Southern Ocean. (NBAF-E) 4. Cooper L (2017) PhD Thesis (University of Edinburgh) Population genomics of pollinating fig wasps and their natural enemies. (NBAF-E) 5. de Freitas SMRN (2017) PhD Thesis (University of Porto, Portugal) Why sex? Darevskia answers. (NBAF-E) 6. Frost M (2017) PhD Thesis (University of Aberdeen) Population genomics and spatial planning for the conservation of the endangered common skate species complex. (NBAF-S) 7. Glass D (2017) PhD Thesis (University of Brighton) The social structure of the hazel dormouse (Muscardinus avellanarius). (NBAF-S) 8. Gupta A (2017) PhD Thesis (University of Liverpool) Metagenomes and metatranscriptomes of cellulolytic communities in anoxic environments. (NBAF-L) 9. Hall E (2017) PhD Thesis (University of Plymouth) The vulnerability of different populations of the commercially-important shrimp pandalus borealis to environmental stress. (NBAF-B) 10. Khwaja N (2017) PhD Thesis (University of Sheffield) Investment patterns and kinship cues in a cooperatively breeding bird. (NBAF-S) 11. Meade L (2017) PhD thesis (UCL) Fitness consequences of sex-ratio meiotic drive and female multiple mating in a stalk-eyed fly, Teleopsis dalmanni. (NBAF-S)
19 12. Mira Pérez O (2017) PhD Thesis (University of Granada, Spain) Conservation genetics and phylogeography of the Apollo butterfly Parnassius apollo. (NBAF-S) 13. Moran P (2017) PhD Thesis (University of St Andrews) A behavioural and genomic approach to studying the evolution of reproductive isolation: a contact zone between closely related field crickets in the genus Teleogryllus. (NBAF-EL) 14. Murphy G (2017) PhD Thesis (University of Essex) Isoprene degradation in the terrestrial environment. (NBAF-EL) 15. Paliwal D (2017) PhD Thesis (University of Reading) Identification and characterisation of new aphid killing bacteria for use as biological pest control agents. (NBAF-L) 16. Powell G (2017) PhD Thesis (University of Swansea) Whose wood is it anyway? Interspecific interactions between saprotrophic Agaricomycetes and the impact on wood decomposition. (NBAF-L) 17. Robertson FM (2017) PhD Thesis (University of Aberdeen) Sequence capture for phylogenomics in salmonid fishes: reconstructing evolution after genome duplication. (NBAF-L) 18. Thomas R (2017) PhD Thesis (University of Leeds) Molecular epidemiology of Trichomonas gallinae in European Turtle Doves (Streptopelia turtur). (NBAF-S) 19. Verspoor R (2017) PhD thesis (University of Liverpool) A study of X-chromosome meiotic drive in the Palearctic fly Drosophila subobscura. (NBAF-ES) 20. Vidal Dura A (2017) PhD Thesis (University of Leeds) Controls on microbial diversity and sediment biogeochemistry along a dynamic estuary. (NBAF-L) 21. Weber E (2017) PhD thesis (University of Aberdeen): Ecological insights into unexplored Archaea through environmental ecophysiology, single-cell genomics and cultivation. (NBAF-L)
Chapters and non-peer reviewed papers 1. Phillips KP, Mortimer JA, Jolliffe KG, Jolliffe S-M, Hodgkiss RD, McClelland JHR, Liljevik A (2017) Season-long Sperm Storage and No Multiple Paternity in Green Turtles (Chelonia mydas) Nesting on Cousine Island, Seychelles. Marine Turtle Newsletter 154, 6-11. (NBAF-S) 2. Gray C, Bista I, Creer S, Demars BOL, Falciani F, Monteith DT, Sun X, and Woodward G, Freshwater conservation and biomonitoring of structure and function: Genes to ecosystems (2015) in “Aquatic functional biodiversity: an ecological and evolutionary perspective” p241-271. Editors: A. Belgrano, G. Woodward, U. Jacob, Academic Press. ISBN: 978-0-12-417015-5 (NBAF-L). 3. Hatchwell BJ (2016) Long-tailed tits: ecological causes and fitness consequences of redirected helping. In Cooperative Breeding in Birds (Eds WD Koenig & JL Dickinson), pp 39-57. Cambridge University Press, Cambridge. (10.1017/CBO9781107338357.004) (NBAF-S)
Talks
1. Adriaenssens E (2017) Invited seminar: Can we use metagenomic methods for virus detection? Challenges and discoveries. University of Leuven, Belgium, Sep 2017. (NBAF-L) 2. Carvalho G (2017) Talk. Environmental DNA and marine biological invasions: In: British Council Workshop on Marine biological invasions. University of Southampton July, 2017. (NBAF-L) 3. Gaither M, Gkafas G, De Jong M, Sarigol F, Neat F, Regnier T, Moore D, Hoelzel AR (2017) Talk. Genomics of habitat choice and adaptive evolution in the deep sea. The 10th Indo-Pacific Fish conference, Tahiti, 2-6 Oct 2017. (NBAF-L) 4. Hosegood J (2017) Talk. Exploring ddRAD data for differentiating Mobulid species. Society for Wildlife Forensic Sciences Meeting Edinburgh. June 2017. (NBAF-S) 5. Kidner C (2017) Talk. Mining herbariums with hybrid baits. BBSRC STARS Bioinformatics Winter School - 16 March 2017 (NBAF-E) 6. Lohse K. (March 2017), Mirages and flies in the desert revisited - towards model-based genomic maps of post-divergence gene-flow, University of Bern, invited seminar (NBAF-E) 7. Lohse K. (June 2017), CIBIO, Portugal, invited seminar (NBAF-E) 8. Santos Magalhaes I, Hahn C, Robson A, Smith A, Haesler M, Young K, Genner M, Joyce D (2017) Talk. The genomics of polymorphism in a sexually selected trait, Population Genetics Group meeting, Cambridge January 2017. (NBAF-E)
20 9. Twyford AD (2017) Talk. On the nature of species differences in hemiparasitic Euphrasia. World Congress on Parasitic Plants. (NBAF-E) 10. Twyford AD (2017) Talk. Genomic basis of taxonomic complexity in hemiparasitic Euphrasia. International Botanical Congress. (NBAF-E)
Others
1. Adriaenssens E (2017) poster: Using metaviromics as a novel tool to detect pathogenic viruses in the environment. Microbiology Society Annual Meeting, Edinburgh, Apr 2017. (NBAF-L) 2. Adriaenssens E (2017) poster: Using metaviromics as a novel tool to detect pathogenic viruses in the environment: Case study in the Conwy river catchment, Wales" at the VEME meeting in Lisbon, Portugal, Aug-Sep 2017. (NBAF-L) 3. Buggs R (2017) data from some assemblies was made available at http://www.ashgenome.org/worldwide (NBAF-E) 4. Hicks N, Xuan Liu, Richard Gregory, John Kenny, Anita Lucaci, Luca Lenzi, David M. Paterson, Katherine R. Duncan (2017) Poster: Benthic microbial diversity influences biogeochemical cycling under future climate scenarios 6-8th September, 2017, AMBIO (Advances in Marine Biogeochemistry) VIII Conference, Special Interest Group of The Challenger Society for Marine Science, Oban, Scotland. (NBAF-L) 5. Kidner C; led to fed into an successful EU-DTP application (http://www.plantid.uio.no/) (NBAF- E) 6. Lohse K, Ritchie MG, Etges, WJ, Mirages and flies in the desert revisited - a likelihood based scan for reduced gene flow (March 2017), Gordon conference, poster presentation. (NBAF-E) 7. Ross L, publicly available ensembl database to share our genome assemblies and annotations http://ensembl.mealybug.org/index.html (NBAF-EL) 8. Santos TL, Henley MD, Fernandes C, Mumby HS (2017) Poster: Genetic and social relationships between male savannah elephants. Behaviour. 30th July to 4th August 2017. Estoril, Portugal. (NBAF-S) 9. Santos TL (2017) MSc Thesis (University of Lisbon) Genetic characterisation of an African elephant (Loxodonta africana) population: the role of genetic relatedness in male social groups. (NBAF-S)
21 2016 [Joint nodes] 1. Kim K-W, Griffith S, Burke T (2016) Linkage mapping of a polymorphic plumage locus associated with intermorph incompatibility in the Gouldian finch (Erythrura gouldiae). Heredity 116, 409-416. (10.1038/hdy.2015.114) [NBAF-E/S] 2. Küpper C, Stocks M, Risse JE, dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI, Kitaysky AS, Wingfield JC, Piersma T, Zeng K, Slate J, Blaxter M, Lank DB, Burke T (2016) A supergene determines highly divergent male reproductive morphs in the ruff. Nature Genetics 48, 79-83. (10.1038/ng.3443) [NBAF-E/S] 3. Meyer-Lucht Y, Mulder KP, James MC, McMahon BJ, Buckley K, Piertney SB, Hoglund J (2016) Adaptive and neutral genetic differentiation among Scottish and endangered Irish red grouse (Lagopus lagopus scotica). Conservation Genetics 17, 615-630 1–16. (10.1007/s10592- 016-0810-0) [NBAF-E/S] 4. Wenzel MA, Douglas A, James MC, Redpath SM, Piertney SB (2016) The role of parasite-driven selection in shaping landscape genomic structure in red grouse (Lagopus lagopus scotica). Molecular Ecology 25, 324-341. (10.1111/mec.13473) [NBAF-E/S]
[NBAF-B] 1. Davidson RL, Weber RJM, Liu H, Sharma-Oates A, Viant MR (2016) Galaxy-M: A galaxy workflow for processing and analysing direct infusion and liquid chromatography mass spectrometry-based metabolomics data. GigaScience 5, 10. (10.1186/s13742-016-0115-8) 2. Edison AS, Hall RD, Junot C, Karp PD, Kurland IJ, Mistrik R, Reed LK, Saito K, Salek RM, Steinbeck C, Sumner LW, Viant MR (2016) The time is right to focus on model organism metabolomes. Metabolites 6, 8. (10.3390/metabo6010008) 3. Hao J, Liebeke M, Sommer U, Viant MR, Bundy JG, Ebbels TMD (2016) Statistical correlations between NMR spectroscopy and direct infusion FT-ICR mass spectrometry aid annotation of unknowns in metabolomics. Analytical Chemistry 8, 2583–2589. (10.1021/acs.analchem.5b02889). 4. Molloy JC, Sommer U, Viant MR, Sinkins SP (2016) Wolbachia modulates lipid metabolism in Aedes albopictus mosquito cells. Applied and Environmental Microbiology 82, 3109-20. (10.1128/AEM.00275-16)
[NBAF-E]
1. Brennan AC, Hiscock SJ, Abbott RJ (2016) Genomic architecture of phenotypic divergence between two hybridizing plant species along an elevational gradient. AoB Plants 8, plw022. (10.1093/aobpla/plw022) 2. Brown RP, Paterson S, Risse J (2016) Genomic signatures of historical allopatry and ecological divergence in an island lizard. Genome Biology and Evolution 8, 3618-3626. (10.1093/gbe/evw268) 3. Buckley J, Kilbride E, Cevik V, Vicente JG, Holub EB, Mable BK (2016) R-gene variation across Arabidopsis lyrata subspecies: effects of population structure, selection and mating system. BMC Evolutionary Biology 16, 1-17. (10.1186/s12862-016-0665-5) 4. Cameron TC, O’Sullivan D, Reynolds A, Hicks JP, Piertney SB, Benton TG (2016) Harvested populations are more variable only in more variable environments. Ecology and Evolution 6, 4179–4191. (10.1002/ece3.2164) 5. Chapman MA, Hiscock SJ, Filatov DA (2016) The genomic bases of morphological divergence and reproductive isolation driven by ecological speciation in Senecio (Asteraceae). Journal of Evolutionary Biology 29, 98-113. (10.1111/jeb.12765) 6. Clucas GV, Younger JL, Kao D, Rogers AD, Handley J, Miller GD, Jouventin P, Nolan P, Gharbi K, Miller KJ, Hart T (2016) Dispersal in the sub-Antarctic: king penguins show remarkably little population genetic differentiation across their range. BMC Evolutionary Biology 16, 211. (10.1186/s12862-016-0784-z)
22 7. Eyres I, Jaquiery J, Sugio A, Duvaux L, Legeai F, Gharbi K, Nelson M, Simon JC, Smadja CM*, Butlin RK*, Ferrari J* (2016) Differential gene expression according to race and host plant in the pea aphid. Molecular Ecology 25, 4197-4215. (10.1111/mec.13771) (*joint senior authors) 8. Fountain T, Ravinet M, Naylor R, Reinhardt K, Butlin RK (2016) A linkage map and QTL analysis for pyrethroid resistance in the bed bug Cimex lectularius. G3: Genes|Genomes|Genetics 6, 4059-4066. (10.1534/g3.116.033092) 9. Giron D, Huguet E, Stone GN, Body M (2016) Insect-induced effects on plants and possible effectors used by galling and leaf-mining insects to manipulate their host-plant. Journal of Insect Physiology 84, 70–89. (10.1016/j.jinsphys.2015.12.009) 10. Hamilton PB, Cowx IG, Oleksiak MF, Griffiths AM, Grahn M, Stevens JR, Carvalho GR, Nicol L, Tyler CR (2016) Population-level consequences for wild fish exposed to sub-lethal concentrations of chemicals – a critical review. Fish and Fisheries Reviews 17, 545–566. (10.1111/faf.12125) 11. Hamilton PB, Rolshausen G, Webster TMU, Tyler CR (2016) Adaptive capabilities and fitness consequences associated with pollution exposure in fish. Philosophical Transactions of the Royal Society B 360, 397–413. (10.1098/rstb.2016.0042). 12. Hart ML, Forrest LL, Nicholls JA, Kidner CA (2016) Retrieval of hundreds of nuclear loci from herbarium specimens. Taxon 65, 1081-1092. (10.12705/655.9) 13. Jeffries DL, Copp GH, Lawson Handley L, Olsén KH, Sayer CD, Hänfling B (2016) Comparing RADseq and microsatellites to infer complex phylogeographic patterns, an empirical perspective in the Crucian carp, Carassius carassius, L. Molecular Ecology 25, 2997-3018. (10.1111/mec.13613) 14. Kazama Y, Ishii K, Aonuma W, Ikeda T, Kawamoto H, Koizumi A, Filatov DA, Chibalina M, Bergero R, Charlesworth D, Abe T, Kawano S (2016) A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome. Scientific Reports 6, 18917. (10.1038/srep18917) 15. Lohse K, Chmelik M, Frantz L, Barton NH (2016) Efficient strategies for calculating blockwise likelihoods under the coalescent. Genetics 202, 775-786. (10.1534/genetics.115.183814) 16. Mallon EB, Amarasinghe HE, Ott SR (2016) Acute and chronic gregarisation are associated with distinct DNA methylation fingerprints in desert locusts. Scientific Reports 6, 35608 (10.1038/srep35608) 17. Nevado B, Atchison GW, Hughes CE, Filatov DA (2016) Widespread adaptive evolution during repeated evolutionary radiations in New World lupins. Nature Communications 7, 12384. (10.1038/ncomms12384) 18. Nicholls JA, Melika G, Stone GN (2016) Sweet tetra-trophic interactions: multiple evolutions of nectar secretion, a defensive extended phenotype in cynipid gallwasps. The American Naturalist 189, 67-77. (10.1086/689399) 19. Nürnberger B, Lohse K, Fijarczyk A, Szymura JM, Blaxter M (2016) Para-allopatry in hybridizing fire-bellied toads (Bombina bombina and B. variegata): inference from transcriptome-wide coalescence analyses. Evolution 70, 1803–1818. (10.1111/evo.12978) 20. Ouvrard P, Hicks DM, Mouland M, Nicholls JA, Baldock KCR, Goddard MA, Kunin WE, Potts SG, Thieme T, Veromann E, Stone GN (2016) Molecular taxonomic analysis of the plant associations of adult pollen beetles (Nitidulidae; Meligethinae), and the population structure of Brassicogethes aeneus. Genome 59, 1101-1116. (10.1139/gen-2016-0020) 21. Pascoal S, Mendrok M, Mitchell C, Wilson AJ, Hunt J, Bailey NW (2016) Sexual selection and population divergence I. The influence of socially flexible cuticular hydrocarbon expression in male field crickets (Teleogryllus oceanicus). Evolution 70, 82-97. (10.1111/evo.12839) 22. Porcelli D, Westram AM, Pascual M, Gaston KJ, Butlin RK, Snook RR (2016) Gene expression clines reveal local adaptation and associated trade-offs at a continental scale. Scientific Reports 6, 32975. (10.1038/srep32975) 23. Qiu S, Bergero R, Guirao-Rico S, Campos JL, Cezard T, Gharbi K, Charlesworth D (2016) RAD- mapping reveals an evolving, polymorphic and fuzzy boundary of a plant pseudoautosomal region. Molecular Ecology 25, 414-430. (10.1111/mec.13297) 24. Szitenberg A, Cha S, Opperman CH, Bird DM, Blaxter ML, Lunt DH (2016) Genetic drift, not life history or RNAi, determine long term evolution of transposable elements. Genome biology and evolution 8, 2964-2978. (10.1093/gbe/evw208)
23 25. Truebano M, Tills O, Spicer JI (2016) Embryonic transcriptome of the brackishwater amphipod Gammarus chevreuxi. Marine Genomics 28, 5-6. (10.1016/j.margen.2016.02.002) 26. Vallejo-Marín M, Cooley AM, Lee MYQ, Folmer MR, McKain MR, Puzey JR (2016) Strongly asymmetric hybridization barriers shape the origin of a new polyploid species and its hybrid ancestor. American Journal of Botany 103, 1-17. (10.3732/ajb.1500471) 27. Vallejo-Marin M, Hiscock SJ (2016) Hybridization and hybrid speciation under global change. New Phytologist 211, 1170-1187. (10.1111/nph.14004) 28. Wallbank RWR, Baxter SW, Pardo-Diaz C, Hanly JJ, Martin SH, Mallet J, Dasmahapatra KK, Salazar C, Joron M, Nadeau N, McMillan WO, Jiggins CD (2016) Evolutionary Novelty in a Butterfly Wing Pattern through Enhancer Shuffling. PLoS Biology 14, e1002353. (10.1371/journal.pbio.1002353) 29. Zohren J, Wang N, Kardailsky I, Borrell JS, Joecker A, Nichols RA, Buggs RJA (2016) Unidirectional diploid-tetraploid introgression among British birch trees with shifting ranges shown by RAD markers. Molecular Ecology 25, 2413–2426. (10.1111/mec.13644)
[NBAF-L] 1. Auffret MD, Karhu K, Khachane A, Dungait JAJ, Fraser F, Hopkins DW, et al. (2016) The role of microbial community composition in controlling soil respiration responses to temperature. PLoS One 11, e0165448. (10.1371/journal.pone.0165448)
2. Bondy-Denomy J, Qian J, Westra ER, Buckling A, Guttman DS, Davidson AR, Maxwell KL (2016) Prophages mediate defense against phage infection through diverse mechanisms. ISME Journal 10, 2854-2866. (10.1038/ismej.2016.79) 3. Chabas H, van Houte S, Høyland-Kroghsbo NM, Buckling A, Westra ER (2016) Immigration of susceptible hosts triggers the evolution of alternative parasite defence strategies. Proceedings of the Royal Society B 283, 20160721. (10.1098/rspb.2016.0721) 4. Cox F, Newsham KK, Bol R, Dungait JAJ, Robinson CH (2016) Not poles apart: Antarctic soil fungal communities show similarities to those of the distant Arctic. Ecology Letters, 19, 528-536. (10.1111/ele.12587) 5. Cunliffe M (2016) Purine catabolic pathway revealed by transcriptomics in the model marine bacterium Ruegeria pomeroyi DSS-3. FEMS Microbiology Ecology 92, fiv150. (10.1093/femsec/fiv150) 6. Farrant GK, Doré H, Cornejo-Castillo FM, Partensky F, Ratin M, Ostrowski M, Pitt FD, Wincker P, Scanlan DJ, Iudicone D, Acinas SG, Garczarek L (2016) Delineating ecologically significant taxonomic units from global patterns of marine picocyanobacteria. Proceedings of the National Academy of Sciences of the United States of America E3365-E3374. (10.1073/pnas.1524865113) 7. Gomez P, Paterson S, De Meester L, Liu X, Lenzi L, Sharma MD, (…) Buckling A (2016) Local adaptation of a bacterium is as important as its presence in structuring a natural microbial community. Nature Communications 7, 12453. (10.1038/ncomms12453) 8. Gonzalez-Quevedo C, Davies RG, Phillips KP, Spurgin LG, Richardson DS (2016) Landscape- scale variation in an anthropogenic factor shapes immune gene variation within a wild population. Molecular Ecology 25, 4234–4246. (10.1111/mec.13759) 9. Hargreaves KR, Thanki AM, Jose BR, Oggioni MR, Clokie MRJ (2016) Use of single molecule sequencing for comparative genomics of an environmental and a clinical isolate of Clostridium difficile ribotype 078. BMC Genomics 17, 1020. (10.1186/s12864-016-3346-2) 10. Harrison E, Dytham C, Hall JPJ, Guymer D, Spiers AJ, Paterson S, Brockhurst MA (2016) Rapid compensatory evolution promotes the survival of conjugative plasmids. Mobile Genetic Elements 6, e1179074. (10.1080/2159256x.2016.1179074) 11. Hiscox J, Savoury M, Johnston SR, Parfitt D, Müller CT, Rogers HJ, Boddy L (2016) Location, location, location: priority effects in wood decay communities may vary between sites. Environmental Microbiology 18, 1954-1969. (10.1111/1462-2920.13141) 12. King KC, Brockhurst MA, Vasieva O, Paterson S, Betts A, Ford S, Frost CL, Horsburgh MJ, Haldenby S, Hurst GDD (2016) Rapid evolution of microbe-mediated protection against pathogens in a worm host. ISME Journal 10, 1915–1924. (10.1038/ismej.2015.259)
24 13. Lappin FM, Shaw RL, Macqueen DJ (2016) Targeted sequencing for high-resolution evolutionary analyses following genome duplication in salmonid fish: Proof of concept for key components of the insulin-like growth factor axis. Marine Genomics 30, 15-26 (10.1016/j.margen.2016.06.003) 14. Newsham KK, Hopkins DW, Carvalhais LC, Fretwell PT, Rushton SP, O’Donell AG, Dennis PG (2016) Relationship between soil fungal diversity and temperature in the maritime Antarctic. Nature Climate Change 6, 182–186. (10.1038/nclimate2806) 15. Oton EV, Quince C, Nicol GW, Prosser JI, Gubry-Rangin C (2016) Phylogenetic congruence and ecological coherence in terrestrial Thaumarchaeota. ISME Journal 10, 85-96. (10.1038/ismej.2015.101) 16. Palmer WH, Obbard DJ (2016) Variation and evolution in the glutamine-rich repeat region of Drosophila Argonaute-2. Genes, Genomes, Genetics 6, 2563-2572. (10.1534/g3.116.031880) 17. Pascoal S, Liu X, Ly T, Fang Y, Rockliffe N, Paterson S, Shirran SL, Botting CH, Bailey NW (2016) Rapid evolution and gene expression: a rapidly-evolving Mendelian trait that silences field crickets has widespread effects on mRNA and protein expression. Journal of Evolutionary Biology 29, 1234-1246. (10.1111/jeb.12865) 18. Perez Sepulveda B, Redgwell T, Rihtman B, Pitt F, Scanlan DJ, Millard A (2016) Marine phage genomics: the tip of the iceberg. FEMS Microbiology Letters 363, fnw158. (10.1093/femsle/fnw158) 19. Pitt FD, Millard A, Ostrowski M, Dervish S, Mazard S, Paulsen IT, Zubkov MV, Scanlan DJ (2016) A sample-to-sequence protocol for genus targeted transcriptomic profiling: application to marine Synechococcus. Frontiers in Microbiology 7, 1592. (10.3389/fmicb.2016.01592) 20. Price SJ, Garner TWJ, Cunningham AA, Langton TES, Nichols RA (2016) Reconstructing the emergence of a lethal infectious disease of wildlife supports a key role for spread through translocations by humans. Proceedings of the Royal Society B 283, 20160952. (10.1098/rspb.2016.0952) 21. Strittmatter M, Grenville-Briggs LJ, Breithut L, van West P, Gachon CMM, Küpper FC (2016) Infection of the brown alga Ectocarpus siliculosus by the oomycete Eurychasma dicksonii induces oxidative stress and halogen metabolism. Plant, Cell & Environment 39, 259-271. (10.1111/pce.12533) 22. van Houte S, Ekroth AK, Broniewski JM, Chabas H, Ashby B, Bondy-Denomy J, Gandon S, Boots M, Paterson S, Buckling A, Westra ER (2016) The diversity-generating benefits of a prokaryotic adaptive immune system. Nature 532, 385-8. (10.1038/nature17436) 23. Van’t Hof AE, Campagne P, Rigden DJ, Yung CJ, Lingley J, Quail MA, Hall N, Darby AC, Saccheri IJ (2016) The industrial melanism mutation in British peppered moths is a transposable element. Nature 534, 102-105. (10.1038/nature17951) 24. Wang W, Ma L, Becher H, Garcia S, Kovarikova A, Leitch IJ, Leitch AR, Kovarik A (2016) Astonishing 35S rDNA diversity in the gymnosperm species Cycas revoluta Thunb. Chromosoma 125, 683–699 (10.1007/s00412-015-0556-3)
[NBAF-S] 1. Almathen F, Charruau P, Mohandesan E, Mwacharo JM, Orozco-terWengel P, Pitt D, Abdussamad AM, Uerpmann M, Uerpmann HP, De Cupere B, Magee P, Alnaqeeb MA, Salim B, Raziq A, Dessie T, Abdelhadi OM, Banabazi MH, Al-Eknah M, Walzer C, Faye B, Michael Hofreiter M, Peters J, Hanotte O, Burger PA (2016) Ancient and modern DNA reveal dynamics of domestication and cross-continental dispersal of the dromedary. Proceedings of the National Academy of Sciences of the United States of America 113, 6707-6712. (10.1073/pnas.1519508113) 2. Bi G, dos Remedios N, Dawson DA, Kingma SA, Schroeder J, Dugdale HL (2016) A multiplex set for microsatellite typing and sexing of the European bee-eater (Merops apiaster). European Journal of Wildlife Research 62, 501. (10.1007/s10344-016-1012-2) 3. Dawson DA, dos Remedios N, Horsburgh GJ (2016) A new marker based on the avian spindlin gene that is able to sex most birds, including species problematic to sex with CHD markers. Zoo Biology 35, 533-545. (10.1002/zoo.21326) 4. Diao W, Mousset M, Horsburgh GJ, Vermeulen CJ, Johannes F, van de Zande L, Ritchie MG, Schmitt T, Beukeboom LW (2016) Quantitative Trait Locus analysis of mating behavior and male
25 sex pheromones in Nasonia wasps. G3 Genes Genomes Genetics 6, 1549-1562. (10.1534/g3.116.029074) 5. El Nagar A, MacColl ADC (2016) Parasites contribute to ecologically dependent postmating isolation in the adaptive radiation of three-spined stickleback. Proceedings of the Royal Society B 283, 20160691. (10.1098/rspb.2016.0691) 6. Engler JO, Secondi J, Dawson DA, Elle O, Hochkirch A (2016) Range expansion and retraction along a moving contact zone has no effect on the genetic diversity of two passerine birds. Ecography 38, 1-10. (10.1111/ecog.01520) 7. Field J, Leadbeater E (2016) Cooperation between non-relatives in a primitively eusocial paper wasp, Polistes dominula. Philosophical Transactions of the Royal Society of London Series B. 371, 20150093. (10.1098/rstb.2015.0093) 8. Giraldo-Perez P, Herrera P, Campbell A, Taylor ML, Skeats A, Aggio R, Wedell N, Price TAR (2016) Winter is coming: hibernation reverses the outcome of sperm competition in a fly. Journal of Evolutionary Biology 29, 371–379. (10.1111/jeb.12792) 9. Green J, RP Freckleton, BJ Hatchwell (2016) Variation in helper investment among cooperatively breeding bird species is consistent with Hamilton’s rule. Nature Communications 7, 12663. (10.1038/ncomms12663) 10. Heathcote R, MacGregor H, Sciberras J, While GM, D’Ettorre P, Uller T (2016) Male behaviour drives assortative reproduction during the initial stage of secondary contact. Journal of Evolutionary Biology 29, 1003-1015. (10.1111/jeb.12840) 11. Levy HJ, Clucas GV, Rogers AD, Leaché AD, Ciborowski K, Polito MJ, Lynch HJ, Dunn M, Hart T (2016) Population structure and phylogeography of the Gentoo Penguin (Pygoscelis papua) across the Scotia Arc. Ecology and Evolution 6, 1834–1853. (10.1002/ece3.1929) 12. Lindholm AK, Dyer KA, Firman RC, Fishman L, Forstmeier W, Holman L, Johannesson H, Knief U, Kokko H, Larracuente AM, Manser A, Montchamp-Moreau C, Petrosyan VG, Pomiankowski A, Presgraves DC, Safronova LD, Sutter A, Unckless RL, Verspoor RL, Wedell N, Wilkinson GS, Price TAR (2016) The ecology and evolutionary dynamics of meiotic drive. Trends in Ecology and Evolution 31, 315-326. (10.1016/j.tree.2016.02.001) 13. Mundy NI, Stapley J, Bennison C, Tucker R, Twyman H, Kim K-W, Burke TA, Birkhead TR, Andersson S, Slate J (2016) Red carotenoid coloration in the zebra finch is controlled by a cytochrome P450 gene cluster. Current Biology 26, 1435-1440. (10.1016/j.cub.2016.04.047) 14. Napper CJ & BJ Hatchwell (2016) Social dynamics in non-breeding flocks of a cooperatively breeding bird: causes and consequences of kin associations. Animal Behaviour 122, 23-35. (10.1016/j.anbehav.2016.09.008) 15. Preston SA, JV Briskie & BJ Hatchwell (2016) Adult helpers increase the recruitment of closely related offspring in the cooperatively breeding rifleman. Behavioral Ecology 27, 1617-1626. (10.1093/beheco/arw087) 16. Quinn LR, Meharg AA, van Franeker JA, Graham IM, Thompson PM (2016) Validating the use of intrisic markers in body feathers to identify inter-individual differences in non-breeding areas of northern fulmars. Marine Biology 163, 64. (10.1007/s00227-016-2822-1) 17. Saether BE, V Grøtan, S Engen, T Coulson, P Grant, ME Visser, JE Brommer, R Grant, L Gustaffson, BJ Hatchwell, K Jerstad, P Karell, H Pietiainen, A Roulin, OW Røstad, H Weimerskirch (2016) Demographic routes to variability and regulation in bird populations. Nature Communications 7, 12001. (10.1038/ncomms12001) 18. Sin YW, Newman C, Dugdale HL, Buesching C, Mannarelli M-E, Annavi G, Burke T, Macdonald DW (2016) No compensatory relationship between the innate and adaptive immune system in wild-living European badgers. PLoS One 11, e0163773. (10.1371/journal.pone.0163773) 19. Wright DJ, Brouwer L, Mannarelli ME, Burke T, Komdeur J, Richardson DS (2016) Social pairing of Seychelles warblers under reduced constraints: MHC, neutral heterozygosity, and age. Behavioral Ecology 27, 295-303. (10.1093/beheco/arv150)
NBAF-W 1. Lehmann K, Bell T, Bowes MJ, Amos GCA, Gaze WH, Wellington EMH, Singer AC (2016) Trace levels of sewage effluent are sufficient to increase class 1 integron prevalence in freshwater biofilms without changing the core community. Water Research 106, 163–170. (10.1016/j.watres.2016.09.035).
26 Theses 1. Bista IA (2016) PhD Thesis (Prifysgol Bangor University) Defining a high throughput sequencing identification framework for freshwater ecosystem biomonitoring. (NBAF-L) 2. Booth-Jones K (2016) PhD Thesis (University College London) Distribution and gene flow in a hybridizing population of Pterodroma petrels. (NBAF-S) 3. Godwin JL (2016) PhD Thesis (University of East Anglia) Consequences of sexual selection for reproductive and life history traits in Tribolium castaneum. (NBAF-E) 4. Gonçalves Athanásio C (2016) PhD Thesis (University of Birmingham) DNA methylation in Daphnia magna. (NBAF-B) 5. Harrison M (2016) PhD Thesis (University of Leicester) The influence of ploidy-specific expression on selection. (NBAF-E) 6. Herridge EJ (2016) PhD Thesis (University of Stirling) The ecological and life history consequences of shifts in polyandry across species of dance flies (Diptera: Empididae). (NBAF-S) 7. Holt L (2016) PhD Thesis (University of Sussex) Genetic structure, reproductive skew, and the evolution of sociality in the hover wasp Liostenogaster flavolineata. (NBAF-S) 8. MacAllister SL (2016) PhD Thesis (University of Edinburgh) Regeneration of Scots pine (Pinus sylvestris L.) under drought. (NBAF-B) 9. Montaño-Rendón M (2016) PhD Thesis (University of Sheffield) Ecotype formation in the rough periwinkle Littorina saxatilis using shell shape and sequenced RAD tags. (NBAF-S) 10. Pettett C (nee Easby 2016) PhD Thesis (University of Oxford) Assessing hedgehog diet in rural landscapes by DNA sequencing of faeces. (NBAF-S) 11. Reynolds L (2016) PhD Thesis (University of Liverpool) Evolutionary genetics of adaptation in Lepidoptera. (NBAF-E) 12. Younger J (2016) PhD Thesis (University of Tasmania) Palaeoecological changes in populations of Antarctic ice-dependent predators and their environmental drivers. (NBAF-E)
Other
Chapter
1. Buesching CD, Tinnesand HV, Sin YW, Rosell F, Burke T, Macdonald DW (2016) Coding of group odor in the subcaudal gland secreation of the European badger Meles meles: chemical composition and pouch microbiota. In Chemical Signals in Vertebrates, Part II, Chapter 13, 45– 62. Springer International Publishing, Switzerland. (10.1007/978-3-319-22026-0_5) (NBAF-S)
Talks
2. Frost M (2016) Population genomics for the conservation of the common skate species complex. November 22 2016, SNH-MASTS joint research meeting. (NBAF-S) 3. Frost M (2016) Cryptic population structure in the critically endangered flapper skate and the implications for management in Scottish waters. May 13 2016, SIORC Meeting Elasmobranchs in Scotland (NBAF-S) 4. Frost M (2016) Cryptic population structure and preliminary evidence of relatedness in the critically endangered flapper skate: implications for conservation management. April 15, 2016 Aberdeen University Postgraduate symposium (NBAF-S) 5. Kidner C (2016) Robust reconstruction of hundreds of nuclear loci from herbarium specimens. Plant Evolution UK. University of Cambridge Botanic Gardens, Sept 2016 (NBAF-E) 6. Kidner C (2016) Herbivores and hidden diversity in tropical trees. EEG meeting Aberystwyth, April 2016 (NBAF-E) 7. Kidner C (2016) Herbivores and forest diversity. Forestry Institute of Yunnan. Nov 2016 (NBAF- E) 8. Mumby H (2016) Reproductive and social strategies of elephants. Invited seminars at the University of Konstanz, Germany. (NBAF-S) 9. Mumby H (2016) Reproductive and social strategies of elephants. Invited seminars at the University of Zürich, Switzerland. (NBAF-S)
27 10. Mumby H (2016) The ecology and life history of elephants: Lessons for management and conservation. Illegal Wildlife Trade Colloquium, University of South Africa, Johannesburg, South Africa. (NBAF-S) 11. Mumby H (2016) The lives of elephants. Invited seminar at the Stokes Society, Pembroke College, Cambridge, Rotary Club, Cambridge. (NBAF-S) 12. Mumby H (2016) The lives of elephants. Invited seminar at the Royal Veterinary College, London, UK. (NBAF-S) 13. Mumby H (2016) Uses of technology in managing and studying elephants. Invited conference paper at Traps: Technological mediation of human-animal encounter, University of Cambridge, UK. (NBAF-S) 14. Mumby H (2016) From humans to elephants. Invited seminar, Colorado State University, USA. (NBAF-S) 10. Mumby H (2016) Being an elephant- what can evolutionary and behavioural ecology bring to the study of a flagship species? Invited seminar, University of Kent, UK. (NBAF-S) 11. Orr DT (2016) MSc Thesis. Genomic architecture of Triops cancriformis sex chromosomes in response to sexual system transition. (NBAF-E) 15. Santos T (2016) Genetic characterisation of an African elephant (Loxodonta africana) population: the role of genetic relatedness in male social groups. University of Lisbon, Portugal, December 2016. (NBAF-S)
28 2015
[Joint nodes]
1. Dodsworth S, Leitch AR, Leitch IJ (2015) Genome size diversity in angiosperms and its influence on gene space. Current Opinion in Genetics & Development 35, 73-78. (10.1016/j.gde.2015.10.006) [NBAF-E/L] 2. Dos Remedios N, Lee PLM, Burke T, Székely T, Küpper C (2015) North or South? Phylogenetic and biogeographic origins of a globally distributed avian clade. Molecular Phylogenetics and Evolution 89, 151-159. (10.1016/j.ympev.2015.04.010) [NBAF-E/S] 3. Fountain T, Butlin RK, Reinhardt K, Otti O (2015) Outbreeding effects in an inbreeding insect, Cimex lectularius. Ecology and Evolution 5, 409-418. (10.1002/ece3.1373) [NBAF-E/S] 4. Veltsos P, Gregson E, Morrissey B, Slate J, Hoikkala A, Butlin RK, Ritchie MG (2015) The genetic architecture of sexually selected traits in two natural populations of Drosophila montana. Heredity 115, 565-572. (10.1038/hdy.2015.63) [NBAF-L/S] 5. Weldon L, Abolins S, Lenzi L, Bourne C, Riley EM, Viney ME (2015) The gut microbiota of wild mice. PLoS One 10, e0134643. (10.1371/journal.pone.0134643) [NBAF-E/L] 6. Wenzel MA, Webster LMI, Paterson S, Piertney SB (2015) Identification and characterisation of 17 polymorphic candidate genes for response to parasitic nematode (Trichostrongylus tenuis) infection in red grouse (Lagopus lagopus scotica). Conservation Genetics Resources 7, 23-28. (10.1007/s12686-014-0323-4) [NBAF-E/S] 7. Wenzel MA, Piertney SB (2015) In silico identification and characterisation of 17 polymorphic anonymous non-coding sequence markers (ANMs) for red grouse (Lagopus lagopus scotica). Conservation Genetics Resources, 7 319-323. (10.1007/s12686-014-0416-0) [NBAF-E/S] 8. Wenzel MA, James MC, Douglas A, Piertney SB (2015) Genome-wide association and genome partitioning reveal novel genomic regions underlying variation in gastrointestinal nematode burden in a wild bird. Molecular Ecology, 24 4175-4192. (10.1111/mec.13313) [NBAF-E/S] 9. Wenzel MA, Piertney SB (2015) Digging for gold nuggets: Uncovering novel candidate genes for variation in gastrointestinal nematode burden in a wild bird species. Journal of Evolutionary Biology 28, 807-825. (10.1111/jeb.12614) [NBAF-E/S]
[NBAF-B]
1. Llewellyn CA, Sommer U, Dupont CL, Allen AE, Viant MR (2015) Using community metabolomics as a new approach to discriminate marine microbial particulate organic matter in the western English Channel. Progress in Oceanography 137, 421-433. (10.1016/j.pocean.2015.04.022) 2. Mayor DJ, Sommer U, Cook KB, Viant MR (2015) The metabolic response of marine copepods to environmental warming and ocean acidification in the absence of food. Scientific Reports 5, 13690. (10.1038/srep13690)
[NBAF-E]
1. Bunnefeld L, Frantz L, Lohse K (2015) Inferring bottlenecks from genome-wide samples of short sequence blocks. Genetics 201, 1157-1169. (10.1534/genetics.115.179861) 2. Green DH, Echavarri-Bravo V, Brennan D, Hart MC (2015) Bacterial diversity associated with the coccolithophorid algae Emiliania huxleyi and Coccolithus pelagicus f. braarudii. BioMed Research International, 194540. (10.1155/2015/194540) 3. Hamilton PB, Lange A, Nicol E, Bickley LK, De-Bastos ESR, Jobling S, Tyler CR (2015) Effects of exposure to wwtw effluents over two generations on sexual development and breeding in roach Rutilus rutilus. Environmental Science and Technology 49, 12994–13002. (10.1021/acs.est.5b03777)
29 4. Harrison MC, Hammond RL, Mallon EB (2015) Reproductive workers show queen-like gene expression in an intermediately eusocial insect, the buff-tailed bumblebee Bombus terrestris Molecular Ecology 24, 3043-3063. (10.1111/mec.13215) 5. Lipinska A, Cormier A, Luthringer R, Peters AF, Corre E, Gachon CMM, Cock JM, Coelho SM (2015) Sexual dimorphism and the evolution of sex-biased gene expression in the brown alga Ectocarpus. Molecular Biology & Evolution 32, 1581-1597. (10.1093/molbev/msv049) 6. Lohse K, Clarke M, Ritchie MG, Etges WJ (2015) Genome-wide tests for introgression between cactophilic Drosophila implicate a role of inversions during speciation. Evolution 69, 1178-1190. (10.1111/evo.12650) 7. Mathers TC, Hammond RL, Jenner R, Hänfling B, Gómez A (2015) Transition in sexual system and sex chromosome evolution in the tadpole shrimp Triops cancriformis. Heredity 115, 37-46, (10.1038/hdy.2015.10) 8. McTaggart SJ, Tidbury H, Bridgett S, Garbutt JS, Kaur G, Boots M (2015) Novel insights into the insect trancriptome response to a natural DNA virus. BMC Genomics 16, 310. (10.1186/s12864- 015-1499-z) 9. Nicholls JA, Pennington RT, Jozef E, Koenen M, Hughes CE, Hearn J, Bunnefeld L, Dexter KG, Stone GN, Kidner CA (2015) Using targeted enrichment of nuclear genes to increase phylogenetic resolution in the neotropical rain forest genus Inga (Leguminosae: Mimosoideae). Frontiers in Plant Science 6, 710. (10.3389/fpls.2015.00710) 10. Porcelli D, Butlin RK, Gaston KG, Joly D, Snook RR (2015) The environmental genomics of metazoan thermal adaptation. Heredity 114, 502-514. (10.1038/hdy.2014.119) 11. Rolshausen G, Phillip DA, Beckles DM, Akbari A, Ghoshal S, Hamilton PB, Tyler CR, Scarlett AG, Ramnarine I, Bentzen P, Hendry AP (2015) Do stressful conditions make adaptation difficult? Guppies in the oil-polluted environments of southern Trinidad. Evolutionary Applications 8, 854-70. (10.1111/eva.12289) 12. Sinclair FH, Stone GN, Nicholls JA, Cavers S, Gibbs M, Butterill P, Wagner S, Ducousso A, Gerber S, Petit R, Kremer A, and Schönrogge (2015) Impacts of local adaptation of forest trees on associations with herbivorous insects: implications for adaptive forest management. Evolutionary Applications 8, 972-987. (10.1111/eva.12329) 13. Szitenberg A, John M, Blaxter ML, Lunt DH (2015) ReproPhylo: An Environment for Reproducible Phylogenomics. PLoS Computational Biology 11, e1004447. (10.1371/journal.pcbi.1004447) 14. Taylor ML, Rogers AD (2015) Evolutionary dynamics of a common sub-Antarctic octocorals family. Molecular Phylogenetics and Evolution 84, 185-204. (10.1016/j.ympev.2014.11.008) 15. Tills O, Truebano M, Rundle SD (2015) An embryonic transcriptome of the pulmonate snail Radix balthica. Marine Genomics 24, 259-260. (10.1016/j.margen.2015.07.014) 16. Vallejo-Marín M, Buggs RJA, Cooley AM, Puzey JR (2015) Speciation by genome duplication: Repeated origins and genomic composition of the recently formed allopolyploid species Mimulus peregrinus. Evolution 69, 1487-1500. (10.1111/evo.12678) 17. Wachowiak W, Trivedi U, Perry A, Cavers S (2015) Comparative transcriptomics of a complex of four European pine species. BMC Genomics 16, 1444. (10.1186/s12864-015-1401-z)
[NBAF-L]
1. Bergero R, Qiu S, Charlesworth D (2015) Gene loss from a plant sex chromosome system. Current Biology 25, 1234-1240. (10.1016/j.cub.2015.03.015) 2. Blavet N, Blavet H, Muyle A, Käfer J, Cegan R, Deschamps C, Zemp N, Mousset S, Aubourg S, Bergero R, Charlesworth D, Hobza R, Widmer A, Marais GAB (2015) Identifying new sex-linked genes through BAC sequencing in the dioecious plant Silene latifolia. BMC Genomics 16, 546. (10.1186/s12864-015-1698-7) 3. Folwell BD, McGenity TJ, Price A, Johnson RJ, Whitby C (2015) Exploring the capacity for anaerobic biodegradation of polycyclic aromatic hydrocarbons and naphthenic acids by microbes from oil-sands process affected waters. International Biodeterioration & Biodegradation 108, 214-221. (10.1016/j.ibiod.2014.12.016)
30 4. Gonzalez-Quevedo C, Phillips KP, Spurgin LG, Richardson DS (2015) 454 screening of individual MHC variation in an endemic island passerine. Immunogenetics 67, 149- 162. (10.1007/s00251-014-0822-1) 5. Guler Y, Short S, Etxabe AG, Sherhod CM, Kille P, Ford AT, (2015) Impacts of a newly identified behaviour-altering trematode on its host amphipod: from the level of gene expression to population. Parasitology 142, 1469-1480. 6. Hall JPJ, Harrison E, Lilley AK, Paterson S, Spiers AJ, Brockhurst MA (2015) Environmentally co-occurring mercury resistance plasmids are genetically and phenotypically diverse and confer variable context-dependent fitness effects. Environmental Microbiology 17, 5008–5022. (10.1111/1462-2920.12901) 7. Harney E, Plaistow SJ, Paterson S (2015) Transcriptional changes during Daphnia pulex development indicate that the maturation decision resembles a rate more than a threshold. Journal of Evolutionary Biology 28, 944-958. (10.1111/jeb.12624) 8. Harrison E, Guymer D, Spiers AJ, Paterson S, Brockhurst MA (2015) Parallel compensatory evolution stabilizes plasmids across the Parasitism-mutualism continuum. Current Biology 25, 2034-2039. (10.1016/j.cub.2015.06.024) 9. Harrison E, Truman J, Wright R, Spiers AJ, Paterson S, Brockhurst MA (2015) Plasmid carriage can limit bacteria–phage coevolution. Biology Letters 11, 20150361. (10.1098/rsbl.2015.0361) 10. Harrison E, Wood AJ, Dytham C, Pitchford, JW, Truman J, Spiers A, Paterson S, Brockhurst MA (2015) Bacteriophages limit the existence conditions for conjugative plasmids. mBio 6, e00586– 15. (10.1128/mBio.00586-15) 11. Henry LM, Maiden MCJ, Ferrari J, Godfray CJ (2015) Insect life history and the evolution of bacterial mutualism. Ecology Letters 18, 516-525. (10.1111/ele.12425) 12. Hiscox J, Savoury M, Muller CT, Lindahl BD, Rogers HJ, Boddy L (2015) Priority effects during fungal community establishment in beech wood. The ISME Journal 9, 2246-2260. (10.1038/ismej.2015.38) 13. Jouiaei M, Casewell NR, Yanagihara AA, Nouwens A, Cribb BW, Whitehead D, Jackson TNW, Ali SA, Wagstaff SC, Koludarov I, Alewood P, Hansen J, Fry BG (2015) Firing the sting: chemically induced discharge of cnidae reveals novel proteins and peptides from box jellyfish (Chironex fleckeri) venom. Toxins 7, 936-950. (10.3390/toxins7030936) 14. Kelly LJ, Renny-Byfield S, Pellicer J, Macas J, Novák P, Neumann P, Lysak MA, Day PD, Berger M, Fay MF, Nichols RA, Leitch AR, Leitch IJ (2015) Analysis of the giant genomes of Fritillaria (Liliaceae) indicates that a lack of DNA removal characterizes extreme expansions in genome size. New Phytologist 208, 596-607. (10.1111/nph.13471) 15. Lallias D, Fonseca VG, Gaspar J, Hiddink J, Sung W, Neill SP, Barnes N, Ferrero T, Hall T, Lambshead PJ, Packer M, Thomas WK, Creer S (2015) Environmental metabarcoding reveal heterogeneous drivers of microbial eukaryote diversity in contrasting estuarine ecosystems. The ISME Journal 9, 1208-1221. (10.1038/ismej.2014.213) 16. Ma L, Hatlen A, Kelly LJ, Becher H, Wang W, Kovarik A, Leitch IJ, Leitch AR (2015) Angiosperms are unique among land plant lineages in the occurrence of key genes in the RNA-directed DNA Methylation (RdDM) pathway. Genome Biology and Evolution 7, 2648-2662. (10.1093/gbe/evv171) 17. Mable BK, Kilbride E, Viney M, Tinsley RR (2015) Genetic diversity in tetraploids after a severe bottleneck: immune and neutral gene variation in a feral population of Xenopus laevis. Immunogenetics 67, 591-603. (10.1007/s00251-015-0860-3) 18. Moura AE, Kenny JG, Chaudhuri R, Hughes MA, Reisinger RR, de Bruyn PJN, Dahlheim ME, Hall N, Hoelzel AR (2015) Phylogenomics of the killer whale indicates ecotype divergence in sympatry. Heredity 114, 48-55. (10.1038/hdy.2014.67) 19. Puxty RJ, Perez-Sepulveda B, Rihtman B, Evans DJ, Millard AD, Scanlan DJ (2015) Spontaneous deletion of an ‘ORFanage’ region facilitates host adaptation in a ‘photosynthetic’ cyanophage. PLoS One 10, e0132642. (10.1371/journal.pone.0132642) 20. Sanni GO, Coulon F, McGenity TJ (2015) Dynamics and distribution of bacterial and archaeal communities in oil-contaminated temperate coastal mudflat mesocosms. Environmental Science and Pollution Research 22, 15230-15247. (10.1007/s11356-015-4313-1)
31 21. Smith G, Smith C, Kenny JG, Chaudhuri RR, Ritchie MG (2015) Genome-wide DNA methylation patterns in wild samples of two morphotypes of threespine stickleback (Gasterosteus aculeatus). Molecular Biology and Evolution 32, 888-895. (10.1093/molbev/msu344) 22. Wichard T, Charrier B, Mineur F, Bothwell JH, Clerck OD, Coates JC (2015) The green seaweed Ulva: a model system to study morphogenesis. Frontiers in Plant Science 6, 72. (10.3389/fpls.2015.00072)
[NBAF-S]
1. Acker P, Gregoire A, Rat M, Spottiswoode CN, van Dijk RE, Kaden JC, Pradel R, Hatchwell BJ, Covas R, Doutrelant C (2015) Disruptive viability selection on a black plumage trait associated with dominance. Journal of Evolutionary Biology 28, 2027-2041. (10.1111/jeb.12717) 2. Adams MJ, Robinson MR, Mannarelli ME, Hatchwell BJ (2015) Social genetic and social environment effects on parental and helper care in a cooperatively breeding bird. Proceedings of the Royal Society of London, B 282, 20150689. (10.1098/rspb.2015.0689) 3. Almalki M, Shobrak M, AlRashidi M, dos Remedios N, Szekely T (2015) Sex differences and breeding ecology of a burrow-breeding shorebird, the crab plover Dromas ardeloa. Wader Study Group Bulletin 121, 169-176. (http://www.waderstudygroup.org/article/6398/) 4. Cleasby I, Wakefield ED, Bodey TW, Davies RD, Patrick S, Miller P, Newton J, Votier S, Bearhop S, Hamer KC (2015) Sexual segregation in a wide-ranging marine predator is a consequence of habitat selection. Marine Ecology Progress Series 518, 1-12 (10.3354/meps11112) 5. Cornetti L, Valente LM, Dunning LT, Quan X, Black RA, Hebert O, Savolainen V (2015) The genome of the “Great Speciator” provides insights into bird diversification. Genome Biology and Evolution 7, 2680–2691. (10.1093/gbe/evv168) 6. Dawson DA, Brekke P, dos Remedios N, Horsburgh GJ (2015) A marker suitable for sex-typing birds from degraded samples. Conservation Genetics Resources 7, 337-343. (10.1007/s12686-015- 0429-3) 7. Dawson DA, Bird S, Horsburgh GJ, Ball AD (2015) Autosomal and Z-linked microsatellite markers enhanced for cross-species utility and assessed in a range of birds, including species of conservation concern. Conservation Genetics Resources 7, 881-886. (10.1007/s12686-015-0495- 6) 8. Dawson DA, Kleven O, dos Remedios N, Horsburgh GJ, Kroglund RT, Santos T, Hewitt CRA (2015) A multiplex microsatellite set for non-invasive genotyping and sexing of the osprey (Pandion haliaetus). Conservation Genetics Resources 7, 887-894. (10.1007/s12686-015-0497-4) 9. Dos Remedios N, Székely T, Küpper C, Lee PLM, Kosztolanyi A (2015) Ontogenic differences in sexual size dimorphism across four plover populations. Ibis 157, 590-600. (10.1111/ibi.12263) 10. Fish KE, Collins R, Green NH, Sharpe RL, Douterelo I, Osborn AM, Boxall JB (2015) Characterisation of the physical composition and microbial community structure of biofilms within a model full-scale drinking water distribution system. PLoS One 10, e0115824. (10.1371/journal.pone.0115824) 11. Freer JJ, Mable BK, Clucas GV, Rogers AD, Polito MJ, Dunn M, Naveen R, Levy HJ, Hart T (2015) Limited genetic differentiation among chinstrap penguin (Pygoscelis antarctica) colonies in the Scotia Arc and Western Antarctic Peninsula. Polar Biology 38, 1493-1502. (10.1007/s00300-015-1711-2) 12. Gullett PR, BJ Hatchwell, RA Robinson, KL Evans (2015) Breeding season weather determines long-tailed tit reproductive success through impacts on recruitment. Journal of Avian Biology 46, 441-451. (10.1111/jav.00560) 13. Heathcote RJP, Dawson DA, Uller T (2015) Characterisation of nine European wall lizard (Podarcis muralis) microsatellite loci of utility across sub-species. Conservation Genetic Resources 7, 85-87. (10.1007/s12686-014-0294-5) 14. Jackson H, Strubbe D, Tollington S, Prys-Jones R, Matthysen E, Groombridge JJ (2015) Ancestral origins and invasion pathways in a globally invasive bird correlate with climate and influences from bird trade. Molecular Ecology 24, 4269–4285. (10.1111/mec.13307) 15. Jumpa S, Dawson DA, Horsburgh GJ, Walton C (2015) Conserved microsatellite markers of high cross-species utility for flying, ground and tree squirrels. Conservation Genetics Resources 7, 599- 603. (10.1007/s12686-015-0439-1)
32 16. Kim KW, Zhang H, Horsburgh GJ, Bird S, Dawson DA, Griffith SC, Burke T (2015) Four-way development of microsatellite markers for the Gouldian finch (Erythrura gouldiae). Conservation Genetics Resources 7, 899-907. (10.1007/s12686-015-0498-3) 17. King HC, Murphy A, James P, Travis E, Porter D, Hung, Y-J Saywer J, Cork J, Delahay RJ, Gaze W, Courtenay O, Wellington EM (2015) The variability and seasonality of the environmental reservoir of Mycobacterium bovis shed by wild European badgers. Scientific Reports 5, 12318. (10.1038/srep12318) 18. King HC, Murphy A, James P, Travis E, Porter D, Sawyer J, Cork J, Delahay RJ, Gaze W, Courtenay O, Wellington EM (2015) Performance of a Non-Invasive Test for Detecting Shedding in European Badger (Meles meles) Populations. Journal of Clinical Microbiology 53, 2316-23. (10.1128/JCM.00762-15) 19. Lieber L, Dawson DA, Horsburgh GJ, Noble LR, Jones CS (2015) Microsatellite loci for basking shark (Cetorhinus maximus) monitoring and conservation. Conservation Genetics Resources 7, 917-944. (10.1007/s12686-015-0493-8) 20. Lundgren MR, Besnard G, Ripley BS, Lehmann CER, Chatelet DS, Kynast RG, Namaganda M, Vorontsova MS, Hall RC, Elia J, Osborne CP, Christin P-A (2015) Photosynthetic innovation broadens the niche within a single species. Ecology Letters 18, 1021-1029. (10.1111/ele.12484) 21. Mortega KG, Horsburgh GJ, Illera JC, Dawson DA (2015) Characterization of microsatellite markers for Saxicola species. Conservation Genetics Resources 7, 273-278. (10.1007/s12686-014- 0355-9) 22. Otti O, Johnston PR, Horsburgh GJ, Galindo J, Reinhardt K (2015) Female transcriptomic response to male genetic and non-genetic ejaculate variation. Behavioral Ecology 26, 681-688 (10.1093/beheco/aru209) 23. Paquet M, Doutrelant C, Hatchwell BJ, Spottiswoode CN, Covas R (2015) Antagonistic effects of helpers on breeding male and female survival in a cooperatively breeding bird. Journal of Animal Ecology 84, 1354-1362. (10.1111/1365-2656.12377) 24. Patrick SC, Bearhop S, Bodey TW, Grecian WJ, Hamer KC, Lee J, Votier SC (2015) Individual seabirds show consistent foraging strategies in response to predictable fisheries discards. Journal of Avian Biology 46, 431-440. (10.1111/jav.00660) 25. Razgour O (2015) Beyond species distribution modeling: A landscape genetics approach to investigating range shifts under future climate change. Ecological Informatics 30, 250-256. (10.1016/j.ecoinf.2015.05.007) 26. Sin YW, Annavi G, Newman C, Buesching C (2015) MHC class II assortative mate choice in European badgers (Meles meles). Molecular Ecology 24, 3138-3150. (10.1111/mec.13217) 27. Strubbe D, Jackson H, Groombridge J, Matthysen E (2015) Invasion success of a global avian invader is explained by within-taxon niche structure and association with humans in the native range. Diversity and Distribution 21, 675–685. (10.1111/ddi.12325) 28. Tollington S, Greenwood A, Jones CG, Hoeck P, Chowrimootoo A, Smith D, Richards H, Tatayah V, Groombridge J (2015) Detailed monitoring of a small but recovering population reveals sublethal effects of disease and unexpected interactions with supplementary feeding. Journal of Animal Ecology 84, 969-977. (10.1111/1365-2656.12348) 29. van Dijk RE, Covas R, Doutrelant C, Spottiswoode CN, Hatchwell BJ (2015) Fine-scale genetic structure reflects sex-specific dispersal strategies in a population of sociable weavers (Philetairus socius). Molecular Ecology 24, 4296-4311. (10.1111/mec.13308) 30. Wakefield ED, Cleasby IR, Bearhop S, Bodey TW, Davies R, Miller PI, Newton J, Votier SC, Hamer KC (2015) Long-term individual foraging site fidelity – why some gannets don’t change their spots. Ecology 96, 3058-3074. (10.1890/14-1300.1) 31. While GM, Michaelides S, Heathcote RJP, MacGregor HEA, Zajac N, Beninde J, Carazo P, Pérez i de Lanuza G, Sacchi R, Zuffi MAL, Horváthová T, Fresnillo B, Schulte U, Veith M, Hochkirch A, Uller T (2015) Sexual selection drives asymmetric introgression in wall lizards. Ecology Letters 18, 1366-1375. (10.1111/ele.12531) 32. Williams RC, Dawson DA, Horsbugh GJ, Sinclair W (2015) Isolation and characterisation of microsatellite loci for the ancient cephalopod, Nautilus pompilius. Conservation Genetics Resources 7, 107-111. (10.1007/s12686-014-0304-7) 33. Williams RC, Jackson BC, Duvaux L, Dawson DA, Burke T, Sinclair W (2015) The genetic structure of Nautilus pompilius populations surrounding Australia and the Philippines. Molecular
33 Ecology 24, 3316-28. (10.1111/mec.13255) 34. Young EF, Blechier M, Hauser L, Horsburgh GJ, Meredith MP, Murphy EJ, Pascoal S, Rock J, Tysklind N, Carvalho GR (2015) Oceanography and life history predict contrasting genetic population structure in two Antarctic fish species. Evolutionary Applications 8, 486-509. (10.1111/eva.12259)
[NBAF-W]
1. Lehmann K, Singer A, Bowes MJ, Ings NL, Field D, Bell T (2015) 16S rRNA assessment of the influence of shading on early-successional biofilms in experimental streams. FEMS Microbiology Ecology 91, fiv129. (10.1093/femsec/fiv129) 2. Patalano S, Vlasova A, Wyatt C, Ewels P, Camara F, Ferreira PG, Asher CL, Jurkowski TP, Segonds-Pichon A, Bachman M, González-Navarrete I, Minoche AE, Krueger F, Lowy E, Marcet- Houben M, Rodriguez-Ales JL, Nascimento FS, Balasubramanian S, Gabaldon T, Tarver JE, Andrews S, Himmelbauer H, Hughes WOH, Guigó R, Reik W, Sumner S (2015) Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies. Proceedings of the National Academy of Sciences of the USA 112, 13970-13975. (10.1073/pnas151937112)
Chapters 1. Macdonald DW, Newman C, Buesching CD (2015) Badgers in the rural landscape – Conservation paragon or farming pariah: Lessons from the Wytham Badger Project. In: Wildlife Conservation on Farmland. Volume 2: Conflict in the Countryside (Eds DW Macdonald & RE Feber). (NBAF- S)
Theses
1. Alfadhala S (2015) PhD Thesis (University of Sheffield) Evolutionary and ecological genetics of the Egyptian spiny mouse Acomys dimidiatus. (NBAF-S) 2. Allen RC (2015) PhD Thesis (University of Edinburgh) Secreted virulence factors: evolution, ecology and therapeutic manipulation. (NBAF-E) 3. Almalki M (2015) PhD thesis (University of Bath) Conservation biology of wetland birds: breeding ecology, spatial analyses and genetic differentiation. (NBAF-S) (uk.bl.ethos.665415) 4. Ball A (2015) PhD Thesis (University of Bath) Sexual conflict in the penduline tits (Remizidae): implications for sperm competition and speciation. (NBAF-S) 5. Braim BS (2015) PhD thesis (University of Leicester) Exploring the regulatory role of behaviour and genome architecture in the socially polymorphic ant, Leptothorax acervorum. http://hdl.handle.net/2381/36076 (NBAF-E) 6. Clare FC (2015) PhD Thesis (Imperial College) Quantifying the impact of infection by Batrachochytrium dendrobatidis on montane populations of Alytes obstetricans. (NBAF-E) 7. Cotton A (2015) PhD Thesis (University College London) What drives sexual selection? Meiotic drive stress and mate choice in stalk-eyed flies. (NBAF-S) 8. Dalton N (2015) PhD Thesis (University of Bristol) Impact and management of native plant reintroduction: the case of the greater water parsnip, Sium latifolium. (NBAF-S) 9. Godsall B (2015) PhD Thesis (Imperial College London) Mechanisms of space use in the wood mouse, Apodemus sylvaticus. (NBAF-S) 10. Jackson H (2015) PhD Thesis (University of Kent) Evolutionary and conservation genetics of endemic and invasive parrots. (NBAF-S) 11. Jeffries DL (2015) PhD thesis (University of Hull) Genetic and genomic approaches to the conservation of the threatened crucian carp Carassius carassius (L.): phylogeography, hybridisation and introgression. (EThOS ID: uk.bl.ethos.686228) 12. Jumpa S (2015) PhD thesis (University of Manchester) (University of Manchester) Assessment of Human Impact on the Genetic Diversity of Tropical Forest Taxa. (NBAF-S) 13. King H (2015) PhD Thesis (University of Warwick) Epidemiology and control of Mycobacterium bovis in the Eurasian badger (Meles meles). (NBAF-S)
34 14. Lieber L (2015) PhD Thesis (University of Aberdeen) The application of molecular ecology and hydroacoustics to understand the spatiotemporal patterns of seascape use of a planktivorous shark, the basking shark (Cetorhinus maximus, G. 1765). (NBAF-S) 15. Molloy JC (2015) PhD Thesis (University of Oxford) Wolbachia-mosquito interactions and engineered female-specific lethality for Aedes–arbovirus control. (NBAF-B) 16. Mortega KG (2015) PhD Thesis (University of Konstanz, Germany) The contributions of seasonality, song and hormonal regulation to the evolution of songbirds. (NBAF-S) 17. Murray RL (2015) The ecology and evolution of female-specific ornamentation in the dance flies (Diptera: Empidinae). PhD Thesis, University of Stirling. (NBAF-S) 18. Perez-Sepulveda B (2015) PhD Thesis (University of Warwick) Molecular basis of cyanophage resistance in marine Synechococcus. (NBAF-L) 19. Pylidis C (2015) PhD thesis (University of Bristol) Evaluating the status of brown bears (Ursus arctos) in Greece with the use of non-invasive genetics. (NBAF-S) 20. Robinson C (2015) PhD thesis (University of Aberdeen) Aspects of the molecular ecology of white sharks (Carcharadon carcharias). (NBAF-S) 21. Rouger R (2015) PhD thesis (University of Stirling) Restoration genetics of north-west European saltmarshes: a multiscale analysis of population genetic structure in Puccinellia maritima and Triglochin maritime. (NBAF-S) 22. Sobczyk MK (2015) PhD Thesis (University of Oxford) Application of next-generation sequencing to analysis of the genetic basis of complex traits in plants, with particular focus on nickel hyperaccumulation in the Alyssum serpyllifolium species complex. (NBAF-E) 23. Truman JA (2015) PhD Thesis (University of Liverpool) Experimental evolution of parasite life- history in bacteriophage phi-2. http://repository.liv.ac.uk/2007429/ (NBAF-L) 24. Walker TWN (2015) PhD Thesis (The University of Manchester) Climate and vegetation effects on the northern peatland carbon cycle. (NBAF-E) 25. Wenzel MA (2015) PhD Thesis (University of Aberdeen) Genomic, epigenomic and transcriptomic factors affecting host-parasite interactions in red grouse (Lagopus lagopus scotica). (NBAF-ES) 26. Williams RC (2015) PhD Thesis (University of Lancaster) Evolutionary biology of the exploited cephalopod, Nautilus pompilius. (NBAF-S) 27. Zhang H (2015) PhD Thesis (University of Sheffield) Genetics of plumage colour pattern in the Gouldian finch, erythrura gouldiae. (NBAF-E)
35 [2014]
[Joint nodes]
1. Becher H, Ma L, Kelly LJ, Kovarik A, Leitch IJ, Leitch AR (2014) Endogenous pararetrovirus sequences associated with 24 nt small RNAs at the centromeres of Fritillaria imperialis L. (Liliaceae), a species with a giant genome. The Plant Journal 80, 823-833. (10.1111/tpj.12673) (NBAF-E/L) 2. Casewell NR, Wagstaff SC, Wüster W, Cook DAN, Bolton FMS, King SI, Pla D, Sanz L, Calvete JJ, Harrison RA (2014) Medically important differences in snake venom composition are dictated by distinct postgenomic mechanisms. Proceedings of the National Academy of Science of the USA 111, 9205-9210. (10.1073/pnas.1405484111) (NBAF-E/W) 3. Dodsworth S, Chase MW, Kelly LJ, Leitch IJ, Macas J, Novák P, Piednoël M, Weiss-Schneeweiss H, Leitch AR (2014) Genomic repeat abundances contain phylogenetic signal. Systematic Biology 64, 112-126. (10.1093/sysbio/syu080) (NBAF-E/L) 4. Fountain T, Duvaux L, Horsburgh G, Reinhardt K, Butlin RK (2014) Human-facilitated metapopulation dynamics in an emerging pest species, Cimex lectularius. Molecular Ecology 23, 1071-1084. (10.1111/mec.12673) (NBAF-E/S) 5. Hornett EA, Moran B, Reynolds LA, Charlat S, Tazzyman S, Wedell N, Jiggins CD, Hurst GDD (2014) The evolution of sex ratio distorter suppression affects a 25 cM genomic region in the butterfly hypolimnas bolina. PLoS Genetics 10:e1004822. (10.1371/journal.pgen.1004822) (NBAF-E/L) 6. Wenzel MA & Piertney SB (2014) Fine-scale population epigenetic structure in relation to gastro- intestinal parasite load in red grouse (Lagopus l. scotica). Molecular Ecology 23, 4256-4273 (10.1111/mec.12833) (NBAF-E/L)
[NBAF-B]
1. Ellis RP, Spicer JI, Byrne JJ, Sommer U, Viant MR, White DA, Widdicombe S (2014) 1H NMR Metabolomics reveals contrasting response by male and female mussels exposed to reduced seawater pH, increased temperature, and a pathogen. Environmental Science & Technology 48, 7044-52. (10.1021/es501601w) 2. Poulson-Ellestad KL, Jones CM, Roy J, Viant MR, Fernández FM, Kubanek J, Nunne, BL (2014) Metabolomics and proteomics reveal impacts of chemically mediated competition on marine plankton. Proceedings of the National Academy of Sciences of the USA 111, 9009-14. (10.1073/pnas.1402130111) 3. Søfteland L, Kirwan JA, Hori TSF, Størseth TR, Sommer U, Berntssen MHG, Viant MR, Rise ML, Waagbø R, Torstensen BE, Booman M, Olsvik PA (2014) Toxicological effect of single contaminants and contaminant mixtures associated with plant ingredients in novel salmon feeds. Food and Chemical Toxicology 73, 157-174. (10.1016/j.fct.2014.08.008)
[NBAF-E]
1. Blaxter M, Koutsovoulos G (2014) The evolution of parasitism in Nematoda. Parasitology 142, S26-S39. (10.1017/S0031182014000791) 2. Brown DS, Burger R, Cole N, Vencatasamy D, Clare EL, Montazam A, Symondson WOC (2014) Dietary competition between the alien Asian Musk Shrew (Suncus murinus) and a reintroduced population of Telfair’s Skink (Leiolopisma telfairii). Molecular Ecology 23, 3695-3705. (10.1111/mec.12445) 3. Cameron TC, Plaistow S, Mugabo M, Piertney SB, Benton TG (2014) Eco-evolutionary dynamics. Experiments in a model system. Advances in Ecological Research 50, 171-206. (10.1016/B978-0-12-801374-8.00005-0) 4. Diaz SA, Brunet V, Lloyd-Jones GC, Spinner W, Wharam B, Viney M (2014) Diverse and potentially manipulative signalling with ascarosides in the model nematode C. elegans. BMC Evolutionary Biology 14, 46. (10.1186/1471-2148-14-46) 5. Duvaux L, Geissmann Q, Gharbi K, Zhou JJ, Ferrari J, Smadja CM, Butlin RK (2014) Dynamics
36 of copy number variation in host races of the pea aphid. Molecular Biology and Evolution 32, 63- 80. (10.1093/molbev/msu266) 6. Hearn J, Stone GN, McInnes L, Nicholls JA, Barton NH & Lohse K (2014) Likelihood-based inference of population history from low coverage de novo genome assemblies. Molecular Ecology 23, 198-211. (10.1111/mec.12578) 7. Hickerson MJ, Stone GN, Lohse K, Demos T, Xia X, Takabayashi N (2014) Recommendations for using msBayes to incorporate uncertainty in selecting an ABC model prior: a response to Oaks et al. Evolution 68, 284-294. (10.1111/evo.12241) 8. Lunt DH, Kumar S, Koutsovoulos G, Blaxter ML (2014) The complex hybrid origins of the root knot nematodes revealed through comparative genomics. PeerJ 2: e356. (10.7717/peerj.356) 9. Nadeau NJ, Ruiz M, Salazar P, Counterman B, Medina JA, Ortiz-Zuazaga H, Morrison A, McMillan WO, Jiggins CD, Papa R (2014) Population genomics of parallel hybrid zones in the mimetic butterflies, H. melpomene and H. erato. Genome Research 24, 1316-1333. (10.1101/gr.169292.113) 10. Pascoal S, Cezard T, Eik-Nes A, Gharbi K, Majewska J, Payne E, Ritchie MG, Zuk M, Bailey NW (2014) Rapid convergent evolution in wild crickets. Current Biology 24,1367- 1374. (10.1016/j.cub.2014.04.053) 11. Pegoraro M, Noreen S, Bhutani S, Tsolou A, Schmid R, Kyriacou CP, Tauber E (2014) Molecular evolution of a pervasive natural amino-acid substitution in Drosophila cryptochrome. PLoS One 9 e86483. (10.1371/journal.pone.0086483) 12. Pellicer J, Kelly LJ, Leitch IJ, Zomlefer WB, Fay MF (2014) A universe of dwarfs and giants: genome size and chromosome evolution in the monocot family Melanthiaceae. New Phytologist 201, 1484-1497. (10.1111/nph.12617) 13. Riddell CE, Lobaton Garces JD, Adams S, Barribeau SM, Twell D, Mallon EB (2014) Differential gene expression and alternative splicing in insect immune specificity. BMC Genomics 15, 1031. (10.1186/1471-2164-15-1031) 14. Robinson J, Bunnefeld L, Hearn J, Stone GN, Hickerson M (2014) ABC inference of multi- population divergence with admixture from un-phased population genomic data. Molecular Ecology 23, 4458-4471. (10.1111/mec.12881) 15. Sobczyk MK (2014) In search of French populations of Alyssum serpyllifolium – an exemplary nickel hyperaccumulator species. Genetics Society News 70, 41–42. (NBAF-E) 16. Szitenberg A, Koutsovoulos G, Blaxter ML, Lunt DH (2014) The evolution of tyrosine- recombinase elements in Nematoda. PLoS One 9, e106630. (10.1371/journal.pone.0106630) 17. Taylor RS, Tarver JE, Hiscock SJ, Donoghue PCJ (2014) Evolutionary history of plant microRNAs. Trends in Plant Sciences 19, 175–182. (10.1016/j.tplants.2013.11.008) 18. Thompson MJ, Timmermans MJTN, Jiggins CD, Vogler AP (2014) The evolutionary genetics of highly divergent alleles of the mimicry locus in Papilio dardanus. BMC Evolutionary Biology 14, 140. (10.1186/1471-2148-14-140) 19. Timmermans MJTN, Baxter SW, Clark R, Heckel DG, Vogel H, Collins S, Papanicolaou A, Fuko va I, Joron M, Thompson MJ, Jiggins CD, ffrench-Constant RH, Vogler AP (2014) Comparative genomics of the mimicry switch in Papilio dardanus. Proceedings of the Royal Society, B 281, 20140465. (10.1098/rspb.2014.0465) 20. Trivedi UH, Cezard T, Bridgett S, Montazam A, Nichols J, Blaxter M, Gharbi K (2014) Quality control of next-generation sequencing data without a reference. Frontiers in Genetics 5, 111. (10.3389/fgene.2014.00111) 21. Yang EC, Peters AF, Kawai H, Stern R, Hanyuda T, Bàrbara I, Müller DG, Strittmatter M, Prud'homme van Reine WF, Küpper FC (2014) Ligulate Desmarestia (Desmarestiales, Phaeophyceae) revisited: D. japonica sp. nov. and D. dudresnayi differ from D. ligulata. Journal of Phycology 50, 149-166. (10.1111/jpy.12148) Corrigendum: Journal of Phycology 50, 771-1. 22. Watson M, Thomson M, Risse J, Talbot R, Santoyo-Lopez J, Gharbi K, Blaxter M (2014) poRe: an R package for the visualization and analysis of nanopore sequencing data. Bioinformatics 31, 114-115. (10.1093/bioinformatics/btu590)
[NBAF-L]
37 1. Baumann K, Casewell NR, Ali SA, Jackson TNW, Vetter I, Dobson JS, Cutmore SC, Nouwens A, Lavergne V, Fry BG (2014) A ray of venom: combined proteomic and transcriptomic investigation of fish venom composition using barb tissue from the blue-spotted stingray (Neotrygon kuhlii). Journal of Proteomics 109, 188-198. (10.1016/j.jprot.2014.06.004) 2. Bossus MC, Guler YZ, Short SJ, Morrison ER, Ford AT (2014) Behavioural and transcriptional changes in the amphipod Echinogammarus marinus exposed to two antidepressants, fluoxetine and sertraline. Aquatic Toxicology 151, 46-56. (10.1016/j.aquatox.2013.11.025) 3. Cowan DA, Makhalanyane TP, Dennis PG, Hopkins WD (2014) Microbial ecology and biogeochemistry of continental Antarctic soils. Frontiers in Microbiology 5, 154. (10.3389/fmicb.2014.00154) 4. Ellis S, Matthews JB, Shaw DJ, Paterson S, McWilliam HE, Inglis NF, Nisbet AJ (2014) Ovine IgA-reactive proteins from Teladorsagia circumcincta infective larvae. International Journal for Parasitology 44, 743-750. (10.1016/j.ijpara.2014.05.007) 5. Fong PP, Ford AT (2014) The biological effects of antidepressants on the molluscs and crustaceans: A review. Aquatic Toxicology 151, 4-13. (10.1016/j.aquatox.2013.12.003) 6. Mazard S, Ostrowski M, Holland R, Zubkov MV, Scanlan DJ (2014) Targeted genomics of flow cytometrically sorted cultured and uncultured microbial groups. In IT Paulsen and AJ Holmes (eds.), Environmental Microbiology: Methods and Protocols, Methods in Molecular Biology 1096, 203-212. (10.1007/978-1-62703-712-9_16). 7. Moura AE, Kenny JG, Chaudhuri R, Hughes MA, Welch A, Reisinger RR, de Bruyn PJN, Dahlheim ME, Hall N, Hoelzel AR (2014) Population genomics of the killer whale indicates ecotype evolution in sympatry involving both selection and drift. Molecular Ecology 23, 5179- 5192. (10.1111/mec.12929) 8. Price SJ, Garner TWJ, Nichols RA, Balloux F, Ayres C, Mora-Cabello de Alba A, Bosch J (2014) Collapse of amphibian communities due to an introduced ranavirus. Current Biology 24, 2586- 2591 (10.1016/j.cub.2014.09.028) 9. Price TAR, Bretman A, Gradilla AC, Reger J, Taylor ML, Giraldo P, Campbell A, Hurst GDD, Wedell N (2014) Does polyandry controls population sex ratio via regulation of a selfish gene? Proceedings of the Royal Society, B 281, 20133259. (10.1098/rspb.2013.3259) 10. Short SJ, G Yang, Y Guler, A Green Etxabe, P Kille, Ford AT (2014) Crustacean intersexuality is feminization without demasculinization: implications for environmental toxicology. Environmental Science and Technology 48, 13520-13529. 11. Short SJ, G Yang, P Kille, Ford AT (2014) Vitellogenin is not an appropriate biomarker of feminisation in a crustacean. Aquatic Toxicology 153, 89-97. 12. Westram AM, Galindo J, Alm Rosenblad M, Grahame JW, Panova M, Butlin RK (2014) Do the same genes underlie parallel phenotypic divergence in differentLittorina saxatilis populations? Molecular Ecology 23, 4603-16. (10.1111/mec.12883).
[NBAF-S]
1. Annavi G, Newman C, Buesching CD, Macdonald DW, Burke T, Dugdale HL (2014) Heterozygosity–fitness correlations in a wild mammal population: accounting for parental and environmental effects. Ecology and Evolution 4, 2594-2609. (10.1002/ece3.1112) 2. Annavi G, Newman C, Dugdale HL, Buesching CD, Sin, YW, Burke T, Macdonald DW (2014) Neighbouring-group composition and within-group relatedness drive extra-group paternity rate in the European badger (Meles meles). Journal of Evolutionary Biology 27, 2191-2203. (10.1111/jeb.12473) 3. Buckland S, Cole NC, Groombridge JJ, Küpper C, Burke T, Dawson DA, Gallagher LE, Harris S (2014) High risks of losing genetic diversity in an endemic Mauritian gecko: Implications for conservation. PLoS One 9, e93387 (10.1371/journal.pone.0093387) 4. Buckland S, Cole NC, Godsall B, Rodriquez-Perez J, Gallagher LE, Henshaw SM, Harris S (2014) Habitat selection of the Mauritian lowland forest day gecko at multiple spatial scales: a baseline for translocation. Global Ecology and Conservation 1, 71-79. (10.1016/j.gecco.2014.06.001) 5. Cotton AJ, Földvári M, Cotton S, Pomiankowski A (2014) Male eyespan size is associated with meiotic drive in wild stalk-eyed flies (Teleopsis dalmanni). Heredity 112, 363-369.
38 (10.1038/hdy.2013.131) 6. Ekblom R, Wennekes P, Horsburgh GJ, Burke T (2014) Characterisation of the house sparrow (Passer domesticus) transcriptome: a resource for molecular ecology and immunogenetics. Molecular Ecology Resources 14, 636-646. (10.1111/1755-0998.12213) 7. Engler JO, Secondi J, Dawson DA, Roderus D, Elle O, Hochkirch A (2014) Cross-species utility of 22 microsatellite markers in the Melodious warbler (Hippolais polyglotta). Avian Biology Research 7, 91-98. (10.3184/175815514X13947968713023) 8. Frantz AC, McDevitt AD, Pope LC, Kochan J, Davison J, Clements CF, Elmeros M, Molina- Vacas G, Ruiz-Gonzalez A, Balestrieri A, Van Den Berge K, Breyne P, Do Linh San E, Argen EO, Suchentrunk F, Schley L, Kowalczyk R, Kostka BI, Cirovic D, Sprem N, Colyn M, Ghirardi M, Racheva V, Braun C, Oliveira R, Lanszki J, Stubbe A, Stubbe M, Stier N, Burke T (2014) Re- visiting the phylogeography and demography of European badgers (Meles meles) based on broad sampling, multiple markers and simulations. Heredity 113, 443-453. (10.1038/hdy.2014.45) 9. Godsall B, Coulson T, Malo AF (2014) From physiology to space use: energy reserves and androgenization explain home-range size variation in a woodland rodent. Journal of Animal Ecology 83, 126-135. (10.1111/1365-2656.12116) 10. Green JP, Cant MA, Field J (2014) Using social parasitism to test reproductive skew models in a primitively eusocial wasp. Proceedings of the Royal Society B 281, 20141206. (10.1098/rspb.2014.1206) 11. Gullett P, Evans KL, Robinson RA, Hatchwell BJ (2014) Climate change and annual survival in a temperate passerine: partitioning seasonal effects and predicting future patterns. Oikos 123, 389- 400. (10.1111/j.1600-0706.2013.00620.x) 12. Hatchwell BJ, Gullett P, Adams MJ (2014) Helping in cooperatively breeding long-tailed tits: a test of Hamilton’s rule. Philosophical Transactions B 369, 20130565. (10.1098/rstb.2013.0565) 13. Holland LP, Stevens JR (2014) Assessing the genetic connectivity of two octocoral species in the Northeast Atlantic (NECR152). Natural England, ISBN 978-1-78354-111-9. (http://publications.naturalengland.org.uk/publication/4800813989888000) 14. Leadbeater E, Dapporto L, Turillazzi S, Field J (2014) Available kin recognition cues may explain why wasp behaviour reflects relatedness to nestmates. Behavioral Ecology 25, 344-351. (10.1093/beheco/art113) 15. Martín-Gálvez D, Molina-Morales M, Dawson DA, Parejo D, Martínez J.G, Avilés JM (2014) Characterization of 28 microsatellite loci in the European roller Coracias garrulus (Coracidae, AVES). European Journal of Wildlife Research 60, 843–850. 16. Mira Ó, Martínez JG, Dawson DA, Tinaut A, Sánchez-Prieto C (2014) Twenty new microsatellite loci for population structure and parentage studies of Parnassius apollo nevadensis (Lepidoptera; Papilionidae). Journal of Insect Conservation 18, 771-779. (10.1007/s10344-014-0851-y) 17. Molina-Morales M, Martínez JG, Martín-Gálvez D, Dawson DA, Burke T, Avilés JM (2014) Cuckoo hosts shift from accepting to rejecting parasitic eggs across their lifetime. Evolution 68, 3020-3029. (10.1111/evo.12471) 18. Mori A, Dawson DA, Horsburgh GJ, Giunchi D, Baldaccini NE, Baratti M (2014) Characterisation of microsatellite markers in the stone curlew Burhinus oedicnemus. Conservation Genetics Resources 6, 751-754 (10.1007/s12686-014-0217-5) 19. Parra JE, Beltrán M, Zefania S, Dos Remedios N, Székely T (2014) Experimental assessment of mating opportunities in three shorebird species. Animal Behaviour 90, 83-90. (10.1016/j.anbehav.2013.12.030) 20. Phillips KP, Jorgensen TH, Jolliffe KG, Richardson DS (2014) Potential inter-season sperm storage by a female hawksbill turtle. Marine Turtle Newsletter 140, 13-14. 21. Phillips KP, Mortimer JA, Jolliffe KG, Jorgensen TH, Richardson DS (2014) Molecular techniques reveal cryptic life history and demographic processes of a critically endangered marine turtle. Journal of Experimental Marine Biology and Ecology 455, 29-37. (10.1016/j.jembe.2014.02.012) 22. Razgour O, Rebelo H, Puechmaille SJ, Juste J, Ibáñez C, Kiefer A, Burke T, Dawson DA, Jones G (2014) Scale-dependent effects of landscape variables on gene flow and population structure in bats. Diversity and Distributions 20, 1173-1185. (10.1111/ddi.12200) 23. Sin YW, Annavi G, Dugdale HL, Newman C, Burke T, Macdonald DW (2014) Pathogen burden, co-infection and major histocompatibility complex variability in the European badger (Meles
39 meles). Molecular Ecology 23, 5072-5088. (10.1111/mec.12917) 24. Spurgin LG, Illera JC, Dawson DA, Jorgensen TH, Richardson DS (2014) Genetic and phenotypic divergence in an island pipit: isolation by distance, by colonisation or by adaptation? Molecular Ecology 23, 1028-1039. (10.1111/mec.12672) 25. Spurgin LG, Wright DJ, Velde M, Collar NJ, Komdeur J, Burke T, Richardson DS (2014) Museum DNA reveals the demographic history of the endangered Seychelles warbler. Evolutionary Applications 7, 1134-1143. (10.1111/eva.12191) 26. Van Dijk R, Kaden J, Arguelles-Tico A, Dawson D, Burke T, Hatchwell, B (2014) Cooperative investment in public goods is kin-directed in communal nests of social birds. Ecology Letters 17, 1141-1148. (10.1111/ele.12320) 27. Ward HL, Ransome RD, Jones G, Rossiter SJ (2014) Determinants and patterns of reproductive success in the greater horseshoe bat during a population recovery. PloS ONE 9: e87199. (10.1371/journal.pone.0087199) 28. Wright DJ, Spurgin LG, NJ Collar, Komdeur J, Burke T, Richardson DS (2014) The impact of translocations on neutral and functional genetic diversity within and among populations of the Seychelles warbler. Molecular Ecology 23, 2165-2177 (10.1111/mec.12740)
[NBAF-W]
1. Archer JA, Whiteley G, Casewell NR, Harrison RA, Wagstaff SC (2014) VTBuilder: a tool for the assembly of multi isoform transcriptomes. BMC Bioinformatics 15, 389. 2. Ingham VA, Jones CM, Pignatelli P, Balabanidou V, Vontas J, Wagstaff SC, Moore JD, Ranson H (2014) Dissecting the organ specificity of insecticide resistance candidate genes in Anopheles gambiae: known and novel candidate genes. BMC Genomics 15, 1018.
Chapters
1. Bellamy L, Fowler K, Pomiankowski A (2014) The use of inbreeding to assess the genetic component of condition underlying GEIs in sexual traits. In, Hunt, J. and Hoskens, D. J. (eds), Genotype by Environment Interactions and Sexual Selection, pp213-240. Wiley-Blackwell, Oxford. (NBAF-S)
Theses
1. Almathen F (2014) PhD Thesis (University of Nottingham) Evolutionary history of indigenous Arabian Peninsula camel Camelus dromedarius populations. (NBAF-S) 2. Bruce (nee Powell) C (2014) PhD Thesis (University of East Anglia) From metacommunity dynamics to rapid biodiversity assessment: DNA-based approaches expand horizons in both fundamental and applied ecology. (NBAF-S) 3. Buckland S (2014) PhD Thesis (University of Bristol) Status, ecology and conservation of endemic geckos in Mauritius. (NBAF-S) 4. Burns C (2014) PhD Thesis (University of Warwick) Characterising the functional role of rhizosphere fungi in Miscanthus Giganteus bioenergy cropping systems. (NBAF-W) 5. Coleman PC (2014) PhD Thesis (University of Birmingham) The physiology and ecology of diapause under present and future climate conditions in the blowfly, Calliphora vicina. (NBAF- B). 6. Folwell BD (2014) PhD Thesis (University of Essex) Ecology, activity and interactions of microorganisms biodegrading naphthenic acids and high molecular weight polycyclic aromatic hydrocarbons. (NBAF-B) 7. Gonzalez-Quevedo C (2014) PhD Thesis (University of East Anglia) The spatial scale of immune gene variation within and among populations. (NBAF-L) 8. Gullett PR (2014) PhD Thesis (University of Sheffield) Demographic mechanisms of avian responses to climate change: long-tailed tits Aegithalos caudatus as a case study. (NBAF-S)
40 9. Kappel P (2014) PhD Thesis (University of Hanover) Evolutionary genetics of pheromonal communication in mouse lemurs. (NBAF-L) 10. Koutsovoulos G (2014) PhD Thesis (University of Edinburgh) Genome based phylogeny of Nematoda. (NBAF-E) 11. Mathers T (2014) PhD Thesis (University of Hull) The genetics and evolutionary dynamics of sexual system evolution in tadpole shrimps. (NBAF-E) 12. Napper CJ (2014) PhD Thesis (University of Sheffield) Kinship and social interactions in non- breeding long-tailed tits, Aegithalos caudatus. (NBAF-S) 13. Poynter A (2014) PhD Thesis (University of Birmingham) Impacts of environmental stressors on the River Itchen Ranunculus community. (NBAF-B) 14. Price S (2014) PhD Thesis (Queen Mary University of London) Emergence of a virulent wildlife disease: using spatial epidemiology and phylogenetic methods to reconstruct the spread of amphibian viruses. (NBAF-L) 15. Quinn L (2014) PhD Thesis (University of Aberdeen) Intra- and inter-colony differences in winter foraging strategies in the Northern fulmar, fulmarus glacialis. (NBAF-S) 16. Thomas S (2014) PhD Thesis (Queens University Belfast) Presence, distribution and utilization of novel phosphonate-metabolizing enzymes in the marine environment. (NBAF-L) 17. Thompson MJ (2014) PhD Thesis (University of Cambridge) The evolution of Batesian mimicry in the butterfly Papilio dardanus. (NBAF-E) 18. Webster S (2014) PhD Thesis (University of Sheffield) Selection for local adaptation in Littorina saxatilis. (NBAF-E) 19. Wenwen Diao (2014) PhD Thesis (University of St Andrews) Genetics and genomics of pre- mating isolation in Nasonia. (NBAF-S) 20. Wright D (2014) PhD Thesis (University of East Anglia) Evolutionary and conservation genetics of the Seychelles warbler. (NBAF-S)
41 [2013]
[Joint nodes]
1. Chapman MA, Hiscock SJ, Filatov DA (2013) Genomic divergence during speciation driven by adaptation to altitude. Molecular Biology and Evolution 30, 2553-67. (10.1093/molbev/mst168) NBAF-E/L. 2. Duplouy A, Iturbe-Ormaetxe I, Beatson SA, Szubert JM, Brownlie JC, McMeniman CJ, McGraw EA, Hurst GDD, Charlat S, O’Neill SL, Woolfit M (2013) Draft genome sequence of the male- killing Wolbachia strain wBol1 reveals recent horizontal gene transfers from diverse sources. BMC Genomics 14, 20 (10.1186/1471-2164-14-20) NBAF-E/L 3. Kirkham AR, Lepere C, Jardillier LE, Not F, Bouman H, Mead A, Scanlan DJ (2013) A global perspective on marine photosynthetic picoeukaryote community structure. ISME Journal 7, 922- 936. (10.1038/ismej.2012.166) NBAF-E/L. 4. Osborne OG, Batstone T, Hiscock SJ, Filatov DA (2013) Rapid speciation with gene flow following the formation of Mt Etna. Genome Biology and Evolution 5, 1704-15. (10.1093/gbe/evt127) NBAF-E/L. 5. Toseland A, Daines SJ, Clark JR, Kirkham A, Strauss J, Uhlig C, Lenton TM, Valentin K, Pearson GA, Moulton V, Mock T (2013) The impact of temperature on marine phytoplankton resource allocation and metabolism. Nature Climate Change 3, 979-984. (10.1038/nclimate1989) NBAF- E/L.
[NBAF-B]
1. Cunliffe M (2013) Physiological and metabolic effects of carbon monoxide oxidation in the model marine bacterioplankton Ruegeria pomeroyi DSS-3. Applied and Environmental Microbiology 79, 738-740. (10.1128/AEM.02466-12) 2. Kirwan JA, Broadhurst DI, Davidson RL, Viant MR (2013) Characterising and correcting batch variation in an automated direct infusion mass spectrometry (DIMS) metabolomics workflow. Anal Bioanal Chem 405, 5147–5157. (10.1007/s00216-013-6856-7) 3. Mirbahai L, Southam AD, Sommer U, Williams TD, Bignell JP, Lyons BP, Viant MR, Chipman JK (2013) Disruption of DNA methylation via S-adenosylhomocysteine is a key process in high incidence liver carcinogenesis in fish. Journal of Proteome Research 12, 2895-904. (10.1021/pr400195u). 4. Verberk WCEP, Sommer U, Davidson RL, Viant MR (2013) Anaerobic metabolism at thermal extremes: A metabolomic test of the oxygen limitation hypothesis in an aquatic insect. Integrative and Comparative Biology 53, 609-619 (10.1093/icb/ict015) 5. Viant MR, Sommer U (2013). Mass spectrometry based environmental metabolomics: A primer and review. Metabolomics 9, S144-S158. (10.1007/s11306-012-0412-x). 6. Weber RJM, Selander E, Sommer U, Viant MR (2013) Mapping the phycosphere - a stable- isotope mass spectrometry-based metabolic footprinting approach to analyze exudates from phytoplankton. Marine Drugs 11, 4158-4175. (10.3390/md11114158).
[NBAF-E]
1. Anderson CJ, Kille P, Lawlor AJ, Spurgeon DJ (2013) Life-history effects of arsenic toxicity in clades of the earthworm Lumbricus rubellus. Environmental Pollution 172, 200-207. (10.1016/j.envpol.2012.09.005) 2. Asensio V, Rodríguez-Ruiz A, Garmendia L, Andre J, Kille P, Morgan AJ, Soto M, Marigómez I (2013) Towards an integrative soil health assessment strategy: A three tier (integrative biomarker response) approach with Eisenia fetida applied to soils subjected to chronic metal pollution. Science of The Total Environment 442, 344-365. (10.1016/j.scitotenv.2012.09.048) 3. Bochenek M, Etherington GJ, Koprivova A, Mugford ST, Bell TG, Malin G, Kopriva S (2013) Transcriptome analysis of the sulfate deficiency response in the marine microalga Emiliania huxleyi. New Phytologist 199, 650-662. (10.1111/nph.12303)
42 4. Cameron TC, O'Sullivan D, Reynolds A, Piertney SB, Benton TG (2013) Eco-evolutionary dynamics in response to selection on life-history. Ecology Letters 16, 754-763. (10.1111/ele.12107). 5. Cavers S, Telford A, Arenal Cruz F, Pérez Castañeda AJ, Valencia R, Navarro C, Buonamici A, Lowe AJ, Vendramin GG (2013) Cryptic species and phylogeographical structure in the tree, Cedrela odorata L., throughout the Neotropics. Journal of Biogeography 40, 732-746. (10.1111/jbi.12086) 6. Davey JW, Cezard T, Fuentes-Utrilla P, Eland C, Gharbi K, Blaxter ML (2013) Special features of RAD sequencing data: implications for genotyping. Molecular Ecology 22, 3151-3164. (10.1111/mec.12084) 7. Gachon CMM, Heesch S, Küpper FC, Achilles-Day UEM, Brennan D, Campbell CM, Clarke A, Dorrell RG, Field J, Gontarek S, Rad Menendez C, Saxon RJ, Veszelovszki A, Guiry MD, Gharbi K, Blaxter M, Day JG (2013) The CCAP KnowledgeBase: linking protistan and cyanobacterial biological resources with taxonomic and molecular data. Systematics and Biodiversity 11, 407- 413. (10.1080/14772000.2013.859641) 8. Gautier M, Gharbi K, Cezard T, Foucaud J, Kerdelhué C, Pudlo P, Cornuet J-M, Estoup A (2013) The effect of RAD allele dropout on the estimation of genetic variation within and between populations. Molecular Ecology 22, 3165-78. (10.1111/mec.12089) 9. Hegarty MJ, Coate J, Sherman-Broyles S, Abbott RJ, Hiscock SJ, Doyle J (2013) Lessons from natural and artificial polyploids in higher plants. Cytogenetic and Genome Research 140, 204-225. (10.1159/000353361) 10. Kim JS, Hong JK, Chase MW, Fay MF, Kim JH (2013) Familial relationships of the monocot order Liliales based on a molecular phylogenetic analysis using four plastid loci, matK, rbcL, atpB and atpF-H. Botanical Journal of the Linnean Society. (10.1111/boj.12039) 11. Liu MM, Davey JW, Banerjee R, Han J, Yang F, Aboobaker A, Blaxter ML, Davison A (2013) Fine mapping of the pond snail left-right asymmetry (chirality) locus using RAD-seq and fibre- FISH. PLoS One 8, e71067. (10.1371/journal.pone.0071067) 12. Marsden CD, Verboekmoes H, Thomas R, Wayne RK, Mable BK (2013) Pedigrees, MHC and microsatellites: An integrated approach to assessing genetic diversity in captive population of African wild dogs. Conservation Genetics 14, 171-183. (10.1007/s10592-012-0440-0) 13. Martin SH, Dasmahapatra KK, Nadeau NJ, Salazar C, Walters JR, Simpson F, Blaxter M, Manica A, Mallet J, Jiggins CD (2013) Genome-wide evidence for speciation with gene flow in Heliconius butterflies. Genome Research 23, 1817-28. (10.1101/gr.159426.113) 14. Mucciarelli M, Fay MF (2013) Plastid DNA fingerprinting of the rare Fritillaria moggridgei (Liliaceae) reveals population differentiation and genetic isolation within the Fritillaria tubiformis complex. Phytotaxa 91, 1-23. (10.11646/phytotaxa.91.1.1) 15. Muir AP, Thomas R, Biek R, Mable BK (2013) Using genetic variation to infer associations with climate in the common frog, Rana temporaria. Molecular Ecology 14, 3737-51. (10.1111/mec.12334) 16. Nadeau NJ, Martin SH, Kozak KM, Salazar C, Dasmahapatra KK, Davey JW, Baxter SW, Blaxter ML, Mallet J, Jiggins CD (2013) Genome-wide patterns of divergence and gene flow across a butterfly radiation. Molecular Ecology 22, 814-826. (10.1111/j.1365-294X.2012.05730.x) 17. Ogden R, Gharbi K, Mugue N, Martinsohn J, Senn H, Davey JW, Pourkazemi M, McEwing R, Eland C, Vidotto M, Sergeev A, Congiu L (2013) Sturgeon conservation genomics: SNP discovery and validation using RAD sequencing. Molecular Ecology 22, 3112-3123. (10.1111/mec.12234) 18. Ometto L, Cestaro A, Ramasamy S, Grassi A, Revadi S, et al. (2013) Linking genomics and ecology to investigate the complex evolution of an invasive Drosophila pest. Genome Biology and Evolution 5, 745-757. (10.1093/gbe/evt034) 19. Pannebakker BA, Trivedi U, Blaxter MA, Watt R, Shuker DM (2013) The transcriptomic basis of oviposition behaviour in the parasitoid wasp Nasonia vitripennis. PLoS One 8, e68608. (10.1371/journal.pone.0068608) 20. Renny-Byfield S, Kovarik A, Kelly LJ, Macas J, Novak P, Chase MW, Nichols RA, Pancholi MR, Grandbastien MA, Leitch AR (2013) Diploidization and genome size change in allopolyploids is associated with differential dynamics of low- and high-copy sequences. Plant Journal 74, 829- 839. (10.1111/tpj.12168)
43 21. Richards PM, Liu MM, Lowe N, Davey JW, Blaxter ML, Davison A (2013) RAD-Seq derived markers flank the shell colour and banding loci of the Cepaea nemoralis supergene. Molecular Ecology 22, 3077-89. (10.1111/mec.12262) 22. Rota-Stabelli O, Blaxter M, Anfora G (2013) Drosophila suzukii. Current Biology 23, R8-9. (10.1016/j.cub.2012.11.021) 23. Senn H, Ogden R, Cezard T, Gharbi K, Iqbal Z, Johnson E, Kamps-Hughes N, Rosell F, McEwing R (2013) Reference-free SNP discovery for the Eurasian beaver from restriction site-associated DNA paired-end data. Molecular Ecology 22, 3141-50. (10.1111/mec.12242) 24. Stift M, Hunter BD, Shaw B, Adam A, Hoebe PN, Mable BK (2013) Inbreeding depression in self-incompatible North American Arabidopsis lyrata: disentangling genomic and S-locus specific genetic load. Heredity 110, 19-28. (10.1038/hdy.2012.49) 25. Taylor ML, Cairns SD, Agnew D, Rogers AD (2013) A revision of the genus Thouarella Gray, 1870 (Octocorallia: Primnoidae), including an illustrated dichotomous key, a new species description, and comments on Plumarella Gray, 1870 and Dasystenella Versluys, 1906. Zootaxa 3602, 1-105. (10.11646/zootaxa.3602.1.1) 26. Taylor ML, Yesson C, Agnew DJ, Mitchell RE, Rogers AD (2013) Using fisheries by-catch data to predict octocoral habitat suitability around South Georgia. Journal of Biogeography 40, 1688- 1701. (10.1111/jbi.12122) 27. Wachowiak W, Boratynska K, Cavers S (2013) Geographic patterns of nucleotide diversity and population differentiation in three closely related European pine species from the Pinus mugo complex. Botanical Journal of the Linnean Society 172, 225-238. (10.1111/boj.12049) 28. Wachowiak W, Iason GR, Cavers S (2013) Among population differentiation at nuclear genes in native Scots pine (Pinus sylvestris L.) in Scotland. Flora - Morphology, Distribution, Functional Ecology of Plants 208, 79-86. (10.1016/j.flora.2012.12.009) 29. Wang N, Thomson M, Bodles WJA, Crawford RMM, Hunt HV, Watson-Featherstone A, Pellicer J, Buggs RJA (2013) Genome sequence of dwarf birch (Betula nana) and cross-species RAD markers. Molecular Ecology 22, 3098-3111. (10.1111/mec.12131)
[NBAF-L]
1. Badouin H, Belkhir K, Gregson E, Galindo J, Sundström L, MartinSJ, Butlin RK, Smadja CM (2013) Transcriptome characterisation of the ant Formica exsecta with new insights into the evolution of desaturase genes in social Hymenoptera. PLoS ONE 8, e68200. (10.1371/journal.pone.0068200) 2. Bergero R, Qiu S, Forrest A, Borthwick H, Charlesworth D (2013) Expansion of the pseudoautosomal region and ongoing recombination suppression in the Silene latifolia sex chromosomes. Genetics 194, 673-686. (10.1534/genetics.113.150755) 3. Brown EA, Pilkington JG, Nussey DH, Watt KA, Hayward AD, Tucker R, Graham AL, Paterson S, Beraldi D, Pemberton JM and Slate J (2013) Detecting genes for variation in parasite burden and immunological traits in a wild population: testing the candidate gene approach. Molecular Ecology 22, 757-773. (10.1111/j.1365-294X.2012.05757.x) 4. Chronopoulou P-M, Fahy A, Coulon F, Paissé S, Goñi-Urriza MS, Peperzak L, Acuña-Alvarez L, McKew BA, Lawson T, Timmis KN, Duran R, Underwood GJC, McGenity TJ (2013) Impact of a simulated oil spill on benthic phototrophs and nitrogen-fixing bacteria. Environmental Microbiology 15, 242-252. (10.1111/j.1462-2920.2012.02864.x) 5. Cwiklinski K, Merga JY, Lake SL, Hartley C, Matthews JB, Paterson S, Hodgkinson JE (2013) Transcriptome analysis of a parasitic clade V nematode: Comparative analysis of potential molecular anthelmintic targets in Cylicostephanus goldi. International Journal for Parasitology 43, 917-927. (10.1016/j.ijpara.2013.06.010) 6. McKew BA, Dumbrell A, Taylor JD, McGenity TJ, Underwood GJC (2013) Differences between aerobic and anaerobic degradation of microphytobenthic biofilm-derived organic matter within intertidal sediments. FEMS Microbiology Ecology 84, 495-509. (10.1111/1574-6941.12077) 7. Muir G, Osborne OG, Sarasa J, Hiscock SJ, Filatov DA (2013) Recent ecological selection on regulatory divergence is shaping clinal variation in Senecio on Mount Etna. Evolution 67, 3032- 3042. (10.1111/evo.12157)
44 8. Pascoal S, Carvalho G, Vasieva O, Hughes R, cossins A, Fang Y, Ashelford K, Olohan L, Barroso C, Mendo S, Creer S (2013) Transcriptomics and in vivo tests reveal novel mechanisms underlying endocrine disruption in an ecological sentinel, Nucella lapillus. Molecular Ecology 22, 1589-1608. (10.1111/mec.12137) 9. Qiu S, Bergero R, Charlesworth D (2013) Testing for the footprint of sexually antagonistic polymorphisms in the pseudo-autosomal region of a plant sex chromosome pair. Genetics 194, 663-672. (10.1534/genetics.113.152397) 10. Smith G, Fang Y, Liu X, Kenny J, Cossins AR, Cardoso de Oliveira C, Etges WJ, Ritchie MG (2013) Transcriptome-wide expression variation associated with environmental plasticity and mating success in cactophilic Drosophila mojavensis. Evolution 67, 1950-1963. (10.1111/evo.12082) 11. Van't Hof AE, Nguyen P, Dalikova M, Edmonds N, Marec F, Saccheri IJ (2013) Linkage map of the peppered moth, Biston betularia (Lepidoptera, Geometridae): a model of industrial melanism. Heredity 110, 283-295. (10.1038/hdy.2012.84) 12. Wenzel MA, Webster LMI, Paterson S, Mougeot F, Martinez-Padzilla J and Piertney SB (2013) A transcriptomic investigation of handicap models in sexual selection. Behavioural Ecology and Sociobiology 67, 221-234. (10.1007/s00265-012-1442-0)
[NBAF-S]
1. Alfadala S, Dawson DA, Horsburgh GJ, Behnke JM, Bajer A, Mohallal EME, Zalat S, Slate J (2013) Large-scale isolation of Eastern spiny mouse Acomys dimidiatus microsatellite loci through GS-FLX 454 titanium sequencing. Conservation Genetic Resources 5, 519-524. (10.1007/s12686- 012-9842-z) 2. Angell RL, Butlin RK, Altringham JD (2013) Sexual segregation and flexible mating patterns in temperate bats. PLoS One 8, e54194. (10.1371/journal.pone.0054194) 3. Bellamy L, Chapman N, Fowler K, Pomiankowski A (2013) Sexual traits are sensitive to genetic stress and predict extinction risk in the stalk-eyed fly, Diasemopsis meigenii. Evolution 67, 2662- 2673. (10.1111/evo.12135) 4. Brekke P, Cassey P, Ariani C, Ewen JG (2013) Evolution of extreme-mating behaviour: patterns of extrapair paternity in a species with forced extrapair copulation. Behavioral Ecology and Sociobiology 67, 963-972. (10.1007/s00265-013-1522-9) 5. Bristol RM, Tucker R, Dawson DA, Horsburgh G, Prys-Jones R, Frantz AC, Krupa K, Shah NJ, Burke T, Groombridge JJ (2013) Comparison of historical bottleneck effects and genetic consequences of reintroductions in a critically-endangered island passerine. Molecular Ecology 22, 4644-4662. (10.1111/mec.12429) 6. Bristol RM, Fabre PH, Iresedt M, Jonsson KA, Shah NJ, Tatayah V, Warren BH, Groombridge JJ (2013) Molecular phylogeny of the Indian Ocean Terpsiphone paradise flycatchers: Undetected evolutionary diversity revealed amongst island populations. Molecular Phylogenetics and Evolution 67, 336-347. (10.1016/j.ympev.2013.01.019) 7. Buckland S, Horsburgh GJ, Dawson DA, Cole NC, Krupa AP, Gallagher LE, Henshaw SM, Groombridge JJ, Harris S (2013) Isolation and characterisation of Mauritius lowland day gecko Phelsuma guimbeaui microsatellite loci. Conservation Genetic Resources 5, 1013-1018. (10.1007/s12686-013-9957-x) 8. Davey JS, Vaughan IP, King RA, Bell JR, Bohan DA, Bruford MW, Holland JM, Symondson WOC (2013) Intraguild predation in winter wheat: prey choice by a common epigeal carabid consuming spiders. Journal of Applied Ecology 50, 271-279. (10.1111/1365-2664.12008) 9. Dawson DA, Ball AD, Spurgin LG, Martín-Gálvez D, Stewart IRK, Horsburgh GJ, Potter J, Molina-Morales M, Bicknell AWJ, Preston SAJ, Ekblom R, Slate J, Burke T (2013) High-utility conserved avian microsatellite markers enable parentage and population studies across a wide range of species. BMC Genomics 14, 176. (10.1186/1471-2164-14-176) 10. Farrell LL, Burke T, Slate J, Lank DB (2013) A first-generation microsatellite map of the ruff. Ecology and Evolution 3, 4631-4640. (10.1002/ece3.830) 11. Frantz AC, Heddergott M, Lang J, Schulze C, Ansorge H, Runge M, Braune M, Michler F-U, Wittstatt U, Hoffmann L, Hohmann U, Michler BA, Berge K van den, Horsburgh GJ (2013) Limited mitochondrial DNA diversity is indicative of a small number of founders of the German
45 raccoon (Procyon lotor) population. European Journal of Wildlife Research, 59, 665-674. (10.1007/s10344-013-0719-6) 12. Frantz AC, Zachos FE, Kirschning J, Cellina S, Bertouille S, Mamuris Z, Koutsogiannouli EA, Burke T (2013) Genetic evidence for introgression between domestic pigs and wild boars (Sus scrofa) in Belgium and Luxembourg: a comparative approach with multiple marker systems. Biological Journal of the Linnean Society 110, 104-115. (10.1111/bij.12111) 13. Green JP, Leadbeater E, Carruthers JM, Rosser NS, Lucas ER, Field J (2013) Clypeal patterning in the paper wasp Polistes dominulus: no evidence of adaptive value in the wild. Behavioural Ecology 24, 623-633. (10.1093/beheco/ars226) 14. Hatchwell BJ, Sharp SP, Beckerman AP, Meade J (2013) Ecological and demographic correlates of helping behaviour in a cooperatively breeding bird. Journal of Animal Ecology 82, 486-494. (10.1111/1365-2656.12017) 15. Holland LP, Dawson DA, Horsburgh GJ, Stevens JR (2013) Isolation and characterization of eleven microsatellite loci from the ubiquitous temperate octocoral Alcyonium digitatum (Linnaeus, 1758). Conservation Genetics Resources 5, 767-770. (10.1007/s12686-013-9903-y) 16. Holland LP, Dawson DA, Horsburgh GJ, Krupa AP, Stevens JR (2013) Isolation and characterization of fourteen microsatellite loci from the endangered octocoral Eunicella verrucosa (Pallas, 1766). Conservation Genetics Resources 5, 825-829. (10.1007/s12686-013-9919-3) 17. Kleven O, Dawson DA, Gjershaug JO, Horsburgh GJ, Jacobsen K-O, Wabakken P (2013) Isolation, characterization and predicted genome locations of Eurasian eagle-owl (Bubo bubo) microsatellite loci. Conservation Genetics Resources 5, 723-727. (10.1007/s12686-013- 9891-y) 18. Lovlie H, Gillingham MAF, Worley K, Pizzari T, Richardson DS (2013) Cryptic female choice favours sperm from major histocompatibility complex-dissimilar males. Proceedings of the Royal Society, B 280, 20131296. (10.1098/rspb.2013.1296) 19. Martins FMS, Dawson DA, Horsburgh GJ, Timmons S, Jones DN (2013) Microsatellite loci characterised in a megapode, the Australian brush-turkey Alectura lathami. Conservation Genetics Resources 5, 1179-1184. (10.1007/s12686-013-9996-3) 20. McDevitt AD, Carden RF, Coscia I, Frantz AC (2013) Are wild boars roaming Ireland once more? European Journal of Wildlife Research, 59, 761-764. (10.1007/s10344-013-0721-z) 21. Mills CA, Dawson DA, Horsburgh GJ, Godley BJ, Hodgson DJ (2013) Isolation and characterisation of hazel dormouse (Muscardinus avellanarius) microsatellite loci. Conservation Genetics Resources 5, 687-692. (10.1007/s12686-013-9883-y) 22. Molina-Morales M, Martınez JG, Martın-Galvez D, Dawson DA, Rodrıguez Ruiz J, Burke T, Aviles JM (2013) Evidence of long-term structured cuckoo parasitism on individual magpie hosts. Journal of Animal Ecology 82, 389-398. (10.1111/1365-2656.12022) 23. Napper C, Sharp SP, McGowan A, Simeoni M, Hatchwell BJ (2013) Competition, kinship and dominance in a communally roosting bird. Behavioral Ecology & Sociobiology 67, 729-739. (10.1007/s00265-013-1613-7) 24. Phillips KP, Jorgensen TH, Jolliffe KG, Jolliffe S-M, Henwood J, Richardson DS (2013) Reconstructing paternal genotypes to infer patterns of sperm storage and sexual selection in the hawksbill turtle. Molecular Ecology 22, 2301-2312. (10.1111/mec.12235) 25. Preston SA, Briskie JV, Burke T, Hatchwell BJ (2013) Genetic analysis reveals diverse kin- directed routes to helping in the rifleman Acanthisitta chloris. Molecular Ecology 22, 5027-5039. (10.1111/mec.12448) 26. Preston SA, Dawson DA, Horsburgh GJ, Hatchwell BJ (2013) Characterisation and predicted genome locations of rifleman (Acanthisitta chloris) microsatellite loci (Acanthisittidae, AVES). Conservation Genetic Resources 5, 555-560. (10.1007/s12686-012-9851-y) 27. Razgour O, Juste J, Ibáñez C, Kiefer A, Rebelo H, Puechmaille SJ, Arlettaz R, Burke T, Dawson DA, Beaumont M, Jones G (2013) The shaping of genetic variation in edge-of-range populations under past and future climate change. Ecology Letters 16, 1258-1266. (10.1111/ele.12158) 28. Smith JA, Harrison TJE, Martin GR, Reynolds SJ (2013) Feathering the nest: food supplementation influences nest construction by blue (Cyanistes caeruleus) and great tits (Parus major). Avian Biology Research 6, 18-25. (10.3184/175815512X13530764553094)
46 29. Sprem N, Frantz AC, Cubric-Curik V, Safner T, Curik I (2013) Influence of habitat fragmentation on population structure of red deer in Croatia. Mammalian Biology 78, 230-295. (10.1016/j.mambio.2013.01.001) 30. Tollington S, Jones CG, Greenwood A, Tatayah V, Raisin C, Burke T, Dawson DA, Groombridge JJ (2013) Long-term, fine-scale temporal patterns of genetic diversity in the restored Mauritius parakeet reveal genetic impacts of management and associated demographic effects on reintroduction programmes. Biological Conservation 161, 28-38. (10.1016/j.biocon.2013.02.013) 31. Vincze O, Székely T, Küpper C, AlRashidi M, Amat JA, Argüelles-Tico A, Burke T, Burgas D, Cavitt J, Figuerola J, Shobrak M, Montalvo T, Kosztolányi A (2013) Local environment but not genetic differentiation influences biparental care in ten plover populations. PLoS One 8, e60998. (10.1371/journal.pone.0060998) 32. Yeates SE, Diamond SE, Einum S, Emerson BC, Holt WV, Gage MJG (2013) Cryptic choice of conspecific sperm controlled by the impact of ovarian fluid on sperm swimming behaviour. Evolution 67, 3523-3536. (10.1111/evo.12208) 33. Wright LI, Fuller WJ, Godley BJ, McGowan A, Tregenza T, Broderick AC (2013) No benefits of polyandry to female green turtles. Behavioural Ecology 24, 1022-1029. (10.1093/beheco/art003)
[NBAF-W]
1. Read BA, Kegel J, Klute MJ, Kuo A, Lefebvre SC, Maumus F, Mayer C, Miller J, Monier A, Salamov A, Aguilar M, Claverie JM, Frickenhaus S, Gonzalez K, Herman EK, Lin YC, Napier J, Ogata H, Sarno AF, Shmutz J, Schroeder D, de Vargas C, Verret F, von Dassow P, Valentin K, Van de Peer Y, Wheeler G, Emiliania huxleyi Annotation Consortium, Dacks JB, Delwiche CF, Dyhrman ST, Glöckner G, John U, Richards T, Worden AZ, Young J, Zhang X, Grigoriev IV (2013) Emiliania’s pan genome drives the phytoplankton’s global distribution. Nature 499, 209- 213. (10.1038/nature12221) 2. van Aerle R, Lange A, Moorhouse A, Paszkiewicz K, Ball K, Johnston BD, Booth T, Tyler CR, Santos EM (2013) Silver nanoparticles disrupt mitochondrial function in zebrafish embryos and their toxicity is predominantly associated with bioavailable silver ions. Environmental Science and Technology 47, 8005-14. (10.1021/es401758d)
Theses 1. Asher C (2013) PhD Thesis (University of Leeds) The dynamics of reproductive dominance in dinosaur ants (NBAF-W) 2. Bristol R (2013) PhD thesis (University of Kent) Evolutionary genetics and reintroduction ecology of the critically-endangered Seychelles paradise flycatcher. (NBAF-S) 3. Daly B (2014) DPhil thesis (University of Oxford) Avian malaria in the montane tropics. (NBAF- S) 4. Dos Remedios N (2013) PhD Thesis (University of Bath) The evolutionary history of plovers, genus Charadrius: phylogeography and breeding systems. (NBAF-E /S) 5. El Nagar A (2013) PhD Thesis (University of Nottingham) The role of parasites in the ecological speciation of three-spined sticklebacks Gasterosteus aculeatus. (NBAF-S) 6. Ellis RP (2013) PhD Thesis (University of Plymouth). The impact of ocean acidification, increased seawater temperature and a bacterial challenge on the immune response and physiology of the blue mussel, Mytilus edulis. (NBAF-B) 7. Farrell L (2013) PhD Thesis (Simon Fraser University) Molecular genetics of alternative reproductive morphs in ruffs. (NBAF-E /S) 8. Farrer R (2013) PhD Thesis (Imperial College) Comparative genomics and epidemiology of the amphibian-killing fungus Batrachochytrium dendrobatidis. (NBAF-L) 9. Fellows SA (2013) PhD Thesis (University of Sheffield) Sexual selection and the rapid evolution of reproductive genes and their products in D. pseudoobscura. (NBAF-E) 10. Fish K (2013) PhD Thesis (University of Sheffield) The impact of hydraulic regime upon biofilms in drinking water distribution systems. (NBAF-S) 11. Fountain T (2013) PhD Thesis (University of Sheffield) Global bedbug spread: planes, genes and insecticides. (NBAF-S)
47 12. Hearn J (2013) PhD Thesis (University of Edinburgh) Exploring population history and gall induction in cynipid gallwasps using genomics and transcriptomics. (NBAF-E) 13. Heathcote R (2013) DPhil thesis (University of Oxford) Secondary contact in the common wall lizard. (NBAF-S) 14. Holland L (2013) PhD Thesis (University of Exeter) Genetic assessment of connectivity in the temperate octocorals eunicella verrucosa and alcyonium digitatum in the North East Atlantic. (NBAF-S) 15. Houghton J (2013) PhD Thesis (University of Liverpool) Molecular diversity and functional composition of cellulose degrading communities in anoxic environments. (NBAF-L) 16. Johnson B (2013) PhD Thesis (University of Birmingham) Molecular mechanisms underpinning insect diapause. (NBAF-B) 17. Magnus C (2013) MSc thesis (University of Edinburgh) Chromosomal inversions and speciation in cactophilic Drosophila. (NBAF-E) 18. Morales M (2013) PhD Thesis (University of Granada, Spain) Heritability and repeatability of egg rejection behaviour in magpies. (NBAF-S) 19. Muir AP (2013) PhD Thesis (University of Glasgow) Population genetics of the common frog (Rana temporaria) in relation to climate. (NBAF-E) 20. Nissimov JI (2013) PhD thesis (University of Nottingham) Ecological and functional biodiversity in a marine algal-virus system : genotypes, phenotypes and their ecological significance. (NBAF- L) 21. Phillips K (2013) PhD Thesis (UEA) Molecular ecology of hawksbill turtles Eretmochelys imbricata in the Seychelles. (NBAF-S) 22. Salmon D (2013) PhD Thesis (University of Exeter) Metabolite profiling of the coccolithophores Emiliana huxleyi to examine links between calcification and central metabolism. (NBAF-B) 23. Sin S (2013) PhD Thesis (University of Oxford) The major histocompatibility complex, mate choice and pathogen resistance in the European badger Meles meles. (NBAF-S) 24. Smith G (2013) PhD Thesis (University of St Andrews) Investigating the molecular basis of adaptation and speciation in divergent populations. (NBAF-L) 25. Toseland A (2013) PhD Thesis (University of East Anglia) Computational analysis of eukaryotic metatranscriptomes from diverse marine environments. (NBAF-E) 26. Tyler F (2013) PhD Thesis (University of Exeter) Behavioural and genomic studies of sexual selection in wild field crickets. (NBAF-S) 27. Walkup J (2013) PhD Thesis (University of Aberdeen) Small scale genetic and morphological structure in an island population of European starlings (Sturnus vulgaris). (NBAF-S) 28. Yang G (2013) PhD Thesis (University of Aberdeen) Intersexuality and endocrine disruption in the amphipod Echinogrammarus marinus: from genes to physiology. (NBAF-L)
48 [2012]
[Joint nodes]
1. Hansson B, Tarka M, Dawson DA, Horsburgh GJ (2012) Hybridization but no evidence for backcrossing and introgression in a sympatric population of great reed warblers and clamorous reed warblers. Plos One 7, e31667. [NBAF-E/L/S] 2. Hegarty MJ, Abbott RJ, Hiscock SJ (2012) Allopolyploid speciation in action: the origins and evolution of Senecio cambrensis. Chapter in Soltis D & Soltis P (Eds.) Polyploidy in Plants. Springer, New York. [NBAF E/L/S] 3. Kuepper C, Edwards S, Kosztolanyi A, Alrashidi M, Burke T, Herrmann P, Argüelles-Tico A, Amat JA, Amezian M, Rocha A, Hötker H, Ivanov A, Chernicko J, Szekely T High gene flow on a continental scale in the polyandrous Kentish plover Charadrius alexandrinus. Molecular Ecology 21, 5864-5879. [NBAF-E/L/S] 4. McMahon BJ, Johansson MP, Piertney SB, Buckley K, Höglund J (2012) Genetic variation among endangered Irish red grouse (Lagopus lagopus hibernicus) populations: Implications for conservation and management. Conservation Genetics 13, 639-647. (10.1007/s10592-011-0314-x) NBAF E/S 5. Short S, Yang G, Kille P, Ford AT (2012) A Widespread and Distinctive Form of Amphipod Intersexuality Not Induced by Known Feminising Parasites. Sexual Development 6, 320-324. [NBAF-E/L]
[NBAF-B]
1. Dove ADM, Leisen J, Zhou M, Byrne JJ, Lim-Hing K, Webb HD, Gelbaum L, Viant MR, Kubanek J, Fernández FM (2012) Biomarkers of whale shark health: a metabolomic approach. PLOS One 7, e49379. 2. Freitag S, Feldmann J, Raab A, Crittenden PD, Hogan EJ, Squier AH, Boyd KG, Thain S (2012) Metabolite profile shifts in the heathland lichen Cladonia portentosa in response to N deposition reveal novel biomarkers. Plant Physiology 146, 160-172. 3. Liebeke M, Bundy JG (2012) Tissue disruption and extraction methods for metabolic profiling of an invertebrate sentinel species. Metabolomics 8, 819-830. 4. Ludwig C, Easton JM, Lodi A, Tiziani S, Manzoor SE, Southam AD, Byrne JJ, Bishop LM, He S, Arvanitis TN, Günther UL, Viant MR (2012) Birmingham Metabolite Library: a publicly accessible database of 1-D 1H and 2-D 1H J-resolved NMR spectra of authentic metabolite standards (BML-NMR). Metabolomics 8, 8-18.
[NBAF-E] 1. Amin SA, Green DH, Waheeb DA, Gärdes A, Carrano CJ (2012) Iron transport in the genus Marinobacter. Biometals 25, 135-147. 2. Halliday AM, Lainson FA, Yaga R, Inglis NF, Bridgett S, Nath M, Knox DP (2012) Transcriptional changes in Teladorsagia circumcincta upon encountering host tissue of differing immune status. Parasitology. 139, 387-405. (10.1017/S0031182011002010) 3. Haudry A, Zha HG, Stift M, Mable BK (2012) Disentangling the effects of breakdown of self- incompatibility and transition to selfing in North American Arabidopsis lyrata. Molecular Ecology 21, 1130-1142. (10.1111/j.1365-294X.2011.05435.x) 4. Kelly LJ, Leitch AR, Fay MF, Renny-Byfield S, Pellicer J, Macas J, Leitch IJ (2012) Why size really matters when sequencing plant genomes. Plant Ecology & Diversity 5, 415-425. 5. Kumar S, Koutsovoulos G, Kaur G, Blaxter M (2012) Toward 959 nematode genomes. Worm 1, 42-50. 6. Leitch AR, Leitch IJ (2012) Ecological and genetic factors linked to contrasting genome dynamics in seed plants. New Phytologist 194, 629-646. 7. Lohse K, Barton NH, Melika G and Stone GN (2012) A likelihood-based comparison of population histories in a parasitoid guild. Molecular Ecology 21, 4605-4617. 8. Marsden CD, Woodroffe R, Mills MGL, McNutt JW, Creel S, Groom R, Emmanuel M, Cleaveland S, Kat P, Rasmussen GSA, Ginsberg J, Lines R, André J-M, Begg C, Wayne RK,
49 Mable BK (2012) Spatial and temporal patterns of neutral and adaptive genetic variation in the endangered African wild dog (Lycaon pictus). Molecular Ecology 21, 1379-1393. 9. Marsden CD, Wayne RK, Mable BK (2012) Inferring the ancestry of African wild dogs that returned to the Serengeti-Mara. Conservation Genetics 13, 525-533. 10. Mazard S, Ostrowski M, Partensky F, Scanlan DJ (2012) Multilocus sequence analysis, taxonomic resolution and biogeography of marine Synechococcus. Environmental Microbiology 14, 372-386. 11. Nadeau NJ, Whibley A, Jones RT, Davey JW, Dasmahapatra KK, Baxter SW, Quail MA, Joron M, ffrench-Constant RH, Blaxter ML, Mallet J, Jiggins CD (2012) Genomic islands of divergence in hybridizing Heliconius butterflies identified by large-scale targeted sequencing. Philosophical Transactions of the Royal Society B 367, 343-353. 12. Nicholls JA, Challis RJ, Mutun S and Stone GN (2012) Mitochondrial barcodes are diagnostic of shared refugia but not species in hybridising oak gallwasps. Molecular Ecology 21, 4051-4062. 13. Odee DW, Telford A, Wilson J, Gaye A, Cavers S (2012) Plio-Pleistocene history and phylogeography of Acacia senegal in dry woodlands and savannahs of sub-Saharan tropical Africa: evidence of early colonisation and recent range expansion. Heredity 109, 372-382. 14. Smadja CM, Canbäck B, Vitalis R, Gautier M, Ferrari J, Zhou JJ, Butlin RK (2012) Large-scale candidate gene scan reveals the role of chemoreceptor genes in host plant specialisation and speciation in the pea aphid. Evolution 66, 2723-2738. 15. Smith DB, McFadden N, Blundell RJ, Meredith A, Simmonds P (2012) Diversity of murine norovirus in wild rodent populations: species-specific associations suggest an ancient divergence. Journal of General Virology 93, 259-266. 16. Stone GN, Lohse K, Nicholls JA, Fuentes-Utrilla P, Sinclair F, Schönrogge K, Csóka G, Melika G, Nieves-Aldrey J-L, Pujade-Villar J, Tavakoli M, Askew RR and Hickerson MJ (2012) Reconstructing community assembly in time and space reveals enemy escape in a western palearctic insect community. Current Biology 22, 1-6. 17. Tyson T, O'Mahony Zamora G, Wong S, Skelton M, Daly B, Jones JT, Mulvihill ED, Elsworth B, Phillips M, Blaxter M, Burnell AM (2012) A molecular analysis of desiccation tolerance mechanisms in the anhydrobiotic nematode Panagrolaimus superbus using expressed sequenced tags. BMC Research Notes 5, 68.
[NBAF-L]
1. Bik H, Porazinska DL, Creer S, Caporaso JG, Knight R, Thomas WK (2012) Sequencing our way towards understanding global eukaryotic biodiversity. Trends in Ecology and Evolution 27, 233- 243. 2. Christin PA, Edwards EJ, Besnard G, Boxall SF, Gregory R, Kellogg EA, Hartwell J, Osborne CP, (2012) Adaptive evolution of C4 photosynthesis through recurrent lateral gene transfer. Current Biology 22, 445-449. 3. Canbäck B, André C, Galindo J, Johannesson K, Johansson T, Panova M, Tunlid A, Butlin RK (2012) The Littorina Sequence Database (LSD) – an online resource for genomic data. Molecular Ecology Resources 12, 142-148. 4. Fonseca VG, Nichols B, Lallias D, Quince C, Carvalho GR, Power DM, Creer S (2012) Sample richness and genetic diversity as drivers of chimera formation in nSSU metagenetic analyses. Nucleic Acids Research 40, 9. 5. Guler Y, Short S, Kile P, Ford AT (2012) Integrating field and laboratory evidence for environmental sex determination in the amphipod, Echinogammarus marinus. Marine Biology 159, 2885-2890. (10.1007/s00227-012-2042-2) 6. Kazama Y, Nishihara K, Bergero R, Fujiwara MT, Abe T, Charlesworth D, Kawano S (2012) SlWUS1; An X-linked Gene Having No Homologous Y-Linked Copy in Silene latifolia. G3 (Bethesda) 2, 1269-1278. (10.1534/g3.112.003749) 7. Larsen PE, Field D, Gilbert JA (2012) Predicting bacterial community assemblages using an artificial neural network approach. Nature Methods 9, 621-625 (10.1038/nmeth.1975) 8. Lewis C, Ford AT (2012) Infertility in male aquatic invertebrates: a review. Aquatic Toxicology 120, 79-89. (10.1016/j.aquatox.2012.05.002)
50 9. Matyasek R, Renny-Byfield S, Fulnecek J, Macas J, Grandbastien M-A, Nichols R, Leitch A, Kovarik A (2012) Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in Nicotiana diploids. BMC Genomics 13, 722. 10. Nissimov JI, Worthy CA, Rooks P, Napier JA, Kimmance SA, Henn MR, Ogata H, Allen MJ (2012) Draft genome sequence of four coccolithoviruses: Emiliania huxleyi virus EhV-88, EhV- 201, EhV-207, and EhV-208. Journal of Virology 86, 2896-7. 11. Nissimov JI, Worthy CA, Rooks P, Napier JA, Kimmance SA, Henn MR, Ogata H, Allen MJ (2012) Draft genome sequence of the coccolithovirus Emiliania huxleyi virus 202. Journal of Virology 86, 2380-1. 12. Renny-Byfield S, Kovařík A, Chester M, Nichols RA, Macas J, Novák P, Leitch AR (2012) Independent, rapid and targeted loss of highly repetitive DNA in natural and synthetic allopolyploids of Nicotiana tabacum. PLoS One 7, e36963. 13. Rooks D, McDonald JE, McCarthy AJ (2012) Metagenomics approaches to the discovery of cellulases. Methods in Enzymology 510, 375-394. 14. Short S, Guler Y, Yang G, Kille P, Ford AT (2012) Paramyxean–microsporidian co-infection in amphipods: is the consensus that Microsporidia can feminise their hosts presumptive? International Journal for Parasitology 42, 683-691. (10.1016/j.ijpara.2012.04.014) 15. Turner AK, Begon M, Jackson JA and Paterson S (2012) Evidence for selection at cytokine loci in a natural population of field voles (Microtus agrestis). Molecular Ecology 21, 1632-1646.
[NBAF-S]
1. Barratt CD, Horsburgh GJ, Dawson DA, Gower DJ, Wilkinson M, Loader SP, Jehle R (2012) Characterisation of nine microsatellite loci in the ceacilian amphibian Boulengerula uluguruensis (Gymnophiona), and their cross-species utility in three congeneric species. Conservation Genetics Resources 4, 225-229. 2. Bicknell AWJ, Knight ME, Bilton D, Reid JB, Burke T, Votier SC (2012) Population genetic structure and long-distance dispersal among seabird populations: Implications for colony persistence. Molecular Ecology 21, 2863-2876. 3. Brekke P, Wang J, Bennett PM, Cassey P, Dawson DA, Horsburgh GJ, Ewen JG (2012) Post- copulatory mechanisms of inbreeding avoidance in the island endemic hihi (Notiomystis cincta). Behavioural Ecology 23, 278-284. 4. Buckley J, Butlin RK, Bridle J (2012) Evidence for evolutionary change associated with the recent range expansion of the UK brown argus butterfly in response to climate change. Molecular Ecology 21, 267-280. 5. Dawson DA, Horsburgh GJ, Krupa AK, Stewart IRK, Skjelseth S, Jensen H, Ball AD, Spurgin LG, Mannarelli M-E, Nakagawa S, Schroeder S, Vangestel C, Hinten GN, Burke T (2012) Microsatellite resources for Passeridae species: a predicted microsatellite map of the house sparrow Passer domesticus. Molecular Ecology Resources 12, 501-523. 6. Ekblom R, Slate J, Horsburgh GJ, Birkhead T, Burke T (2012) Comparison between normalised and un-normalised 454-sequencing libraries for small-scale RNA-seq studies. Comparative and Functional Genomics 281693, 1-8. 7. Farrell LL, Dawson DA, Horsburgh GJ, Burke T, Lank DL (2012) Isolation, characterisation and predicted genome locations of ruff (Philomachus pugnax, AVES) microsatellite loci. Conservation Genetic Resources 4, 763-771. 8. Frantz AC, Massei G, Burke T (2012) Genetic evidence for past hybridisation between domestic pigs and English wild boars. Conservation Genetics 13, 1355-1364. 9. Jan C, Dawson DA, Altringham JD, Burke T, Butlin R (2012) Development of conserved microsatellite markers of high cross-species utility in bat species (Vespertilionidae, Chiroptera, Mammalia). Molecular Ecology Resources 12, 532-548. 10. Kuepper C, Augustin J, Edwards S, Szekely T, Kosztolanyi A, Burke T, Janes DE Triploid plover female provides support for a role of the W chromosome in avian sex determination. Biology Letters 8, 787-789.
51 11. Raisin C, Frantz AC, Kundu S, Greenwood AG, Jones CG, Zuel N, Groombridge JJ (2012) Genetic consequences of intensive conservation management for the Mauritius parakeet. Conservation Genetics 13, 707-715. 12. Rossiter SJ, Zubaid A, Mohd-Adnan A, Struebig MJ, Kunz TH, Gopal S, Petit EJ, Kingston T (2012) Social organisation and genetic structure: insights from co-distributed bat populations. Molecular Ecology 21, 647-661. 13. Salmona J, Salamolard M, Fouillot D, Ghestemme T, Larose J, Centon J-F, Sousa V, Dawson DA, Thebaud C, Chikhi L (2012) Signature of a pre-human population decline in the critically endangered Reunion Island endemic forest bird Coracina newtoni. PLOS One 7, e43524. 14. Schroeder J, Burke T, Mannarelli M-E, Dawson DA, Nakagawa S (2012) Maternal effects and heritability of annual productivity. Journal of Evolutionary Biology 25, 149-156. 15. Sin YW, Dugdale H, Newman C, Macdonald DW, Burke T (2012) MHC class II genes in the European badger (Meles meles): characterization, patterns of variation, and transcription analysis. Immunogenetics 64, 313-327. 16. Sin YW, Buesching CD, Burke T, Macdonald DW (2012) Molecular characterization of the microbial communities in the subcaudal gland secretion of the European badger (Meles meles). FEMS Microbiology Ecology 81, 648-659. 17. Sin YW, Dugdale HL, Newman C, Macdonald DW, Burke T (2012) Evolution of MHC class I genes in the European badger (Meles meles). Ecology and Evolution 2, 1644-1662. 18. Smith JA, Dawson DA, Horsburgh GJ, Reynolds SJ (2012) Characterisation of blue tit Cyanistes caeruleus microsatellite loci, and assessment of sequence homology among species to predict cross-species utility and chromosome locations. Conservation Genetics Resources 4, 605-612. 19. Spurgin LG, Illera JC, Padilla D, Richardson DS (2012) Biogeographical patterns and co- occurrence of pathogenic infection across island populations of Berthelot’s pipit. Oecologia 168, 691-701. 20. Vangestel C, Mergeay J, Dawson DA, Callens T, Vandomme V, Lens L (2012) Genetic diversity and population structure in contemporary house sparrow populations along an urbanization gradient. Heredity 109, 163-172. 21. Wright LI, Fuller WJ, Godley BJ, McGowan A, Tregenza T, Broderick AC (2012) Reconstruction of paternal genotypes over multiple breeding seasons reveals male green turtles do not breed annually. Molecular Ecology 21, 3625-3635 22. Wright LI, Stokes KL, Fuller WJ, Godley BJ, McGowan A, Snape R, Tregenza T, Broderick AC (2012) Turtle mating patterns buffer against disruptive effects of climate change. Proceedings of the Royal Society B 279, 2122-2127. 23. Young EF, Rock Meredith MP, Belchier M, Murphy EJ, Carvalho GR (2012) Physical and behavioural influences on larval fish retention: contrasting patterns in two Antarctic fishes. Marine Ecology Progress Series 465, 201–215.
[NBAF-W] 1. Bowes MJ, Ings NL, McCall SJ, Warwick A, Barrett C, Wickham HD, Harman SA, Armstrong LK, Scarlett PM, Roberts C, Lehmann K, Singer AC (2012) Nutrient and light limitation of periphyton in the River Thames: Implications for catchment management. Science of The Total Environment 434, 201-212. 10.1039/c2em30705g 2. Holcombe M, Adra S, Bicak M, Chin S, Coakley S, Graham AI, Green J et al. (2012) Modelling complex biological systems using an agent-based approach. Integrated Biology 4, 53-64. 10.1039/c1ib00042j 3. Krampis K, Booth T, Chapman B, Tiwari B, Bicak M, Field D, Nelson KE (2012) Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community. BMC Bioinformatics 13, 42. 10.1186/1471-2105-13-42 4. Turroni F, Peano C, Pass DA, Foroni E, Severgnini M, et al. (2012) Diversity of bifidobacteria within the infant gut microbiota. PLoS One 7, e36957. 10.1371/journal.pone.0036957
THESES 1. Anderson CJ. (2012) PhD Thesis (Cardiff University / CEH) Mechanistic bases of metal tolerance: linking Phenotype to Genotype. (NBAF-E)
52 2. Annavi G (2012) PhD Thesis (University of Oxford) Genetic, socio-ecological and fitness correlates of extra-group paternity in the European badger (Meles meles). (NBAF-S) 3. Barrera-Zambrano VA (2012) PhD Thesis (Newcastle University) Implications of leaf anatomy and stomatal responses in the Clusia genus for the evolution of crassulacean acid metabolism. (NBAF-E) 4. Bellamy S (2012) PhD Thesis (UCL) Sexual selection in stalk-eyed flies: inbreeding depression, sperm competition and larval development. (NBAF-S) 5. Champneys A (2012) PhD Thesis (Nottingham Trent University) Factors affecting the survival and distribution of the water shrew (Neomys fodiens). (NBAF-S) 6. Cunha LFN (2012) PhD Thesis (University of Ponta Delegada, Portugal) The effects of extreme environments of volcanic origin using earthworms as models. (NBAF-E) 7. Davies R (2012) PhD Thesis (University of Leeds) Flexibility in foraging behaviour of northern gannets. (NBAF-S) 8. Davis LE (2012) PhD Thesis (University College London) An astrobiological study of an alkaline–saline hydrothermal environment, relevant to understanding the habitability of Mars. (NBAF-E) 9. Diamond S (2012) PhD Thesis (University of East Anglia) Mechanisms and consequences of hybridisation between Atlantic salmon (Salmo salar) and brown trout (Salmo trutta). (NBAF-S) 10. Elsworth B (2012) PhD Thesis (Edinburgh University) Sequencing a soil Sentinel. (NBAF-E) 11. Guler YZ (2012) PhD Thesis (University of Portsmouth) Population dynamics and sex- determining mechanisms in the marine amphipod, Echinogammarus marinus. (NBAF-S) 12. Harney E (2012) PhD thesis (University of Liverpool) The evolution of maturation in Daphnia. (NBAF-L) 13. Hodges SA (2012) PhD Thesis (University of Sheffield) Routes to cooperation in the rifleman, Acanthisitta chloris. (NBAF-S) 14. James P (2012) PhD thesis (Newcastle University) Towards the Biogeography of British Soil Microorganisms. (NBAF-L) 15. Kotska B (2012) PhD Thesis (Queen´s University Belfast) Landscape ecology, diet composition and energetics in the Eurasian badger (Meles meles). (NBAF-S) 16. Lehmann K (2012) PhD Thesis (University of Oxford) Effects of sewage effluent on riverine microbial communities. (NBAF-W) 17. Melatunan S (2012) PhD Thesis (Plymouth University) Biochemical, metabolic and morphological responses of the intertidal gastropod Littorina Littorea to ocean acidification and increased temperature. (NBAF-B) 18. Mills C (2012) PhD Thesis (University of Exeter) Conservation and ecology of the hazel dormouse, Muscardinus avellanarius. (NBAF-S) 19. Mirbahai L (2012) PhD Thesis (University Birmingham) DNA methylation profiling of fish tumours. (NBAF-B) 20. Pearman J (2012) PhD Thesis (University of Warwick) Molecular Ecology and transcriptomics of marine photosynthetic picoeukaryotes. (NBAF-E) 21. Qiu S (2012) PhD Thesis (University of Edinburgh) Study of the effect of recombination on sex chromosome evolution and mating system in plants. (NBAF-E). 22. Razgour ON (2012) PhD Thesis (University of Bristol) From genes to landscapes: conservation biology of the grey long-eared bat, Plecotus austriacus. (NBAF-S) 23. Simeoni M (2012) PhD Thesis (University of Sheffield) Inbreeding and incest avoidance in the long-tailed tit. (NBAF-S) 24. Spurgin L (2012) PhD Thesis (University of East Anglia) The role of pathogen-mediated fluctuating selection in generating adaptive genetic variation in Berthelot's pipit. (NBAF-S) 25. Strauss J (2012) PhD Thesis (University of East Anglia). Whole genome expression profiling of the polar diatom Fragilariopsis cylindrus. (NBAF-L) 26. Temperton B (2012) PhD Thesis (Queen's University Belfast) Polyphosphate Metabolism in Marine Bacteria. (NBAF-L) 27. Thomas C (2012) PhD Thesis (University of Hull) Evolutionary Genetics of the Invasive Harlequin Ladybird (Harmonia axyridis). (NBAF-S)
53 28. Thomson JS (2012) PhD Thesis (University of Liverpool) Stability of an evolutionary relevant behavioural trait in fish: impact of environmental and genetic variation on behaviour and physiology. (NBAF-L) 29. Tollington S (2012) PhD thesis (University of Kent) Ecological immunology and genetic diversity of the endangered Mauritius parakeet. (NBAF-S) 30. Whiteside H (2012) PhD Thesis (University of Bristol) The role of subordinate reproduction on the promotion of group living in the red fox (Vulpes vulpes). (NBAF-S) 31. Wright LI (2012) PhD Thesis (University of Exeter). Insights into the mating systems of green turtle populations from molecular parentage analyses. (NBAF-S)
54 [2011]
BOOK CHAPTERS
1. Mazard S, Ostrowski M, Garczarek L, Scanlan DJ (2011) A targeted metagenomic approach to determine the ‘population genome’ of marine Synechococcus. In Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. F. J. de Bruijn (Editor) Wiley Blackwell, pp 301-307. (NBAF-E)
[Joint nodes]
1. Annavi G, Dawson DA, Horsburgh GJ, Greig C, Dugdale HL, Newman C, Macdonald DW, Burke T (2011) Characterisation of twenty-one European badger (Meles meles) microsatellite loci facilitates the discrimination of second-order relatives. Conservation Genetic Resources, 3, 515- 518. [NBAF-E/S] 2. Rheindt FE, Székely T, Edwards SV, Lee PLM, Burke T, Kennerley PR, Bakewell DN, Alrashidi M, Kosztolányi A, Weston MA, Liu W-T, Lei W-P, Shigeta Y, Javed S, Zefania S, Küpper C (2011) Conflict between Genetic and Phenotypic Differentiation: The Evolutionary History of a “Lost and Rediscovered” Shorebird. PLoS ONE, 6, e26995. [NBAF-E/S]
[NBAF-B]
1. Weber RJM, Southam AD, Sommer U, Viant MR (2011) Characterization of Isotopic Abundance Measurements in High Resolution FT-ICR and Orbitrap Mass Spectra for Improved Confidence of Metabolite Identification. Anal. Chem, 83, 3737-3743.
[NBAF-E] 1. Baxter SW, Davey JW, Johnston JS, Shelton AM, Heckel DG, Jiggins CD, Blaxter ML (2011) Linkage Mapping and Comparative Genomics Using Next-Generation RAD Sequencing of a Non- Model Organism. PLoS One 6, e19315. 2. Bergero R, Charlesworth D (2011) Preservation of the Y transcriptome in a 10MY old plant sex chromosome system. Current Biology, 21, 1470-1474. 3. Bihari P, Sipos B, Melika G, Fehér B, Somogyi K, Stone GN, Pénzes Z (2011) Western Palearctic phylogeography of an inquiline oak gallwasp, Synergus umbraculus. Biol J. Linn. Soc, 102, 750- 764. 4. Borland AM, Barrera-Zambrano A, Ceusters J, Shorrock K (2011) The photosynthetic plasticity of crassulacean acid metabolism: an evolutionary innovation for sustainable productivity in a changing world. New Phytologist 191, 619-633. 5. Caisova L, Marin B, Sausen N, Proeschold T, Melkonian M (2011) Polyphyly of Chaetophora and Stigeoclonium within the Chaetophorales (Chlorophyceae), revealed by sequence comparisons of nuclear-encoded SSU rRNA genes. Journal of Phycology, 47, 164-177. 6. Casewell NR, Wagstaff SC, Harrison RA, Wüster W (2011) Gene tree parsimony of multi-locus snake venom protein families reveals species tree conflict as a result of multiple parallel gene loss. Molecular Biology and Evolution, 28, 1157-1172. 7. Casewell NR, Wagstaff SC, Harrison RA, Renjifo C, Wüster W (2011) Domain loss facilitates accelerated evolution and neofunctionalization of duplicate snake venom metalloproteinase toxin genes. Molecular Biology and Evolution, 28, 2637-2649. 8. Celander MC, Goldstone JV, Denslow ND, Iguchi T, Kille P, Meyerhoff RD, Smith BA, Hutchinson TH, Wheeler JR (2011) Species Extrapolation for the 21st Century. Environmental Toxicology and Chemistry 30, 52-63. 9. Colgan TJ, Carolan JC, Bridgett SJ, Sumner S, Blaxter ML, Brown MJ (2011) Polyphenism in social insects: Insights from a transcriptome-wide analysis of gene expression in the life stages of the key pollinator, Bombus terrestris. BMC Genomics, 12, 623. 10. Davey JW, Hohenlohe PA, Etter PD, Boone JQ, Catchen JM, Blaxter ML (2011) Genome-wide genetic marker discovery and genotyping using next-generation sequencing. Nature Reviews Genetics, 12, 499-510.
55 11. Hewitson JP, Harcus Y, Murray J, van Agtmaal M, Filbey KJ, Grainger JR, Bridgett S, Blaxter ML, Ashton PD, Ashford DA, Curwen RS, Wilson RA, Dowle AA, Maizels RM (2011) Proteomic analysis of secretory products from the model gastrointestinal nematode Heligmosomoides polygyrus reveals dominance of Venom Allergen-Like (VAL) proteins. Journal of Proteomics, 74, 1573-1594. 12. Hoffman JI (2011) Gene discovery in the Antarctic fur seal (Arctocephalus gazella) skin transcriptome. Molecular Ecology Resources, 10, 703-710. 13. Joron M, Frezal L, Jones RT, Chamberlain NL, Lee SF, Haag CR, Whibley A, Becuwe M, Baxter SW, Ferguson L, Wilkinson PA, Salazar C, Davidson C, Clark R, Quail MA, Beasley H, Glithero R, Lloyd C, Sims S, Jones MC, Rogers J, Jiggins CD, ffrench-Constant RH (2011) Chromosomal rearrangements maintain a polymorphic supergene controlling butterfly mimicry. Nature, 477, 203-206. 14. Kelly LC, Cockell CS, Herrera-Belaroussi A, Piceno Y, Andersen G, DeSantis T, Brodie E, Thorsteinsson T, Marteinsson V, Poly F, LeRoux X (2011) Bacterial Diversity of Terrestrial Crystalline Volcanic Rocks, Iceland. Microbial Ecology, 62, 69-79. 15. Kirkham AR, Jardillier LE, Tiganescu A, Pearman J, Zubkov MV, Scanlan DJ (2011) Basin-scale distribution patterns of photosynthetic picoeukaryotes along an Atlantic Meridional Transect. Environmental Microbiology, 13, 975-990. 16. Kirkham AR, Jardillier LE, Holland R, Zubkov MV, Scanlan DJ (2011) Analysis of photosynthetic picoeukaryote community structure along an extended Ellett Line transect in the northern North Atlantic reveals a dominance of novel prymnesiophyte and prasinophyte phylotypes. Deep-Sea Research Part I, 58, 733-744. 17. Krienitz L, Bock C, Dadheech PK, Proeschold T (2011) Taxonomic reassessment of the genus Mychonastes (Chlorophyceae, Chlorophyta) including the description of eight new species. Phycologia, 50, 89-106. 18. Lepais O, Bacles CFE (2011) Comparison of random and SSR-enriched shotgun pyrosequencing for microsatellite discovery and single multiplex PCR optimization in Acacia harpophylla F. Muell. Ex Benth. Molecular Ecology Resources, 11, 711-724. 19. Lohse K, Nicholls JA, Stone GN (2011) Inferring the colonisation of a mountain range - refugia vs. nunatak survival in high alpine ground beetles. Molecular Ecology, 20, 394-408. 20. Lohse K, Sharanowski B, Blaxter M, Nicholls JA, Stone GN (2011) Developing EPIC markers for chalcidoid Hymenoptera from EST and genomic data. Molecular Ecology Resources, 11, 521-529. 21. Longdon B, Wilfert L, Osei-Poku J (2011) Host-switching by a vertically transmitted rhabdovirus in Drosophila. Biology Letters, 7, 747-750. 22. Longdon B, Wilfert L, Obbard DJ, Jiggins FM (2011) Rhabdoviruses in Two Species of Drosophila: Vertical Transmission and a Recent Sweep. Genetics, 188, 141-150. 23. Magwire MM, Bayer F, Webster CL, Cao C, Jiggins FM (2011) Successive Increases in the Resistance of Drosophila to Viral Infection through a Transposon Insertion Followed by a Duplication. Plos Genetics, 7, e1002337. 24. Obbard D, Jiggins F, Bradshaw N (2011) Recent and Recurrent Selective Sweeps of the Antiviral RNAi Gene Argonaute-2 in Three Species of Drosophila. Molecular Biology and Evolution, 28, 1043-1056. 25. Pemberton JM, Beraldi D, Craig BH, Hopkins J (2011) Digital gene expression analysis of gastrointestinal helminth resistance in Scottish blackface lambs. Molecular Ecology, 20, 910-919. 26. Proeschold T, Darienko T, Silva PC, Reisser W, Krienitz L (2011) The systematics of Zoochlorella revisited employing an integrative approach. Environmental Microbiology, 13, 350- 364. 27. Rubasinghe SCK, Milne R, Forrest LL, Long DG (2011) Realignment of the genera of Cleveaceae (Marchantiopsida, Marchantiidae). Bryologist, 114, 116-127. 28. Russell JR, Bayer M, Booth C, Cardle L, Hackett CA, Hedley PE, Jorgensen L, Morris JA, Brennan RM (2011) Identification, utilisation and mapping of novel transcriptome-based markers from blackcurrant (Ribes nigrum). BMC Plant Biology, 11, 147. 29. Spurgin LG, Van Oosterhout C, Illera JC, Bridgett S, Gharbi K, Emerson BC, Richardson DS (2011) Gene conversion rapidly generates major histocompatibility complex diversity in recently founded bird populations. Molecular Ecology, 20, 5213-5225.
56 30. Tedder A, Ansell SW, Lao X, Vogel JC, Mable BK (2011) Evidence for both a functioning self- incompatibility system, and the loss of self-incompatibility in Arabis alpina. Annals of Botany 108, 699-713. (10.1093/aob/mcr157) 31. Telford A, O'Hare M, Cavers S (2011) Can genetic bar-coding be used to identify Aquatic Ranunculus L. subgenus Batrachium (DC) A. Gray? A test using some species from the British Isles. Aquatic Botany, 95, 65-70. 32. Webster LMI, Mello LV, Mougeot F, Martinez-Padilla, J, Paterson S, Piertney SB (2011) Identification of genes responding to nematode infection in red grouse. Molecular Ecology Resources, 11, 305-313.
[NBAF-L]
1. Bittner D, Cossins AR, Segner H, Excoffier L, Largiadèr CR (2011) Identification of candidate genes and physiological pathways involved in gonad deformation in whitefish (Coregonus spp.) from Lake Thun, Switzerland. International Journal of Environmental Research and Public Health 8, 2706-2733. 2. Harris C, Hamilton PB, Runnals T, Jobling S, Vinciotti V, Henshaw A, Hodgson DJ, Coe T, Tyler CR, Sumpter JP (2011) The Consequences of Feminization in Breeding Groups of Wild Fish. Environmental Health Perspectives 119, 306-311. 3. Hutchence KJ, Fischer B, Paterson S, Hurst GDD (2011) How do insects react to novel inherited symbionts? A microarray analysis of Drosophila melanogaster response to the presence of natural and introduced Spiroplasma. Molecular Ecology 20, 950-958. 4. Jackson JA, Begon M, Birtles R, Paterson S, Friberg IM, Hall A, Lowe A, Ralli C, Turner A, Zawadzka M and Bradley JE (2011) The analysis of immunological profiles in wild animals: a case study on immunodynamics in the field vole, Microtus agrestis. Molecular Ecology 20, 893- 909. 5. Kelly LJ, Leitch IJ (2011) Exploring giant plant genomes with next-generation sequencing technology. Chromosome Research 19, 939-953. 6. Larsen PE, Collart F, Field D, Meyer F, Keegan KP, Henry CS, McGrath J, Quinn J, Gilbert JA (2011) Predicted Relative Metabolomic Turnover (PRMT): determining metabolic turnover from a coastal marine metagenomic dataset. Microbial Informatics and Experimentation 1, 4. 7. Lowe CD, Mello LV, Samatar N, Martin LE, Montagnes DJS, Watts PC (2011) The transcriptome of the novel dinoflagellate Oxyrrhis marina (Alveolata: Dinophyceae): response to salinity examined by 454 sequencing. BMC Genomics 12, 519. 8. Muir G, Bergero R, Charlesworth D, Filatov DA (2011) Does local adaptation cause high population differentiation of Silene latifolia Y chromosomes? Evolution 65, 3368-3380. (10.1111/j.1558-5646.2011.01410.x) 9. Nissimov JI, Worthy CA, Rooks P, Napier JA, Kimmance SA, Henn MR, Ogata H, Allen MJ (2011) Draft genome sequence of the Coccolithovirus Emiliania huxleyi virus 203. Journal of Virology 85, 13468-9. 10. Paterson S, Piertney SB (2011) Frontiers in host-parasite ecology and evolution. Molecular Ecology 20, 869-871. 11. Qiu S, Bergero R, Zeng K, Charlesworth D (2011) Patterns of codon usage bias in Silene latifolia. Molecular Biology and Evolution 28, 771-780. (10.1093/molbev/msq251) 12. Richards TA, Soanes DM, Jones MD, Vasieva O, Leonard G, Paszkiewicz K, Foster PG, Hall N, Talbot NJ (2011) Horizontal gene transfer facilitated the evolution of plant parasitic mechanisms in the oomycetes. PNAS 108, 15258-63. 13. Sneddon LU, Schmidt R, Fang Y, Cossins AR (2011) Molecular correlates of social dominance: A novel role for ependymin in aggression. Plos One, 6. 14. Spurgin LG, van Oosterhout C, Illera JC, Bridgett S, Gharbi K, Emerson B, Richardson DS (2011) Gene conversion rapidly generates MHC diversity in recently founded bird populations. Molecular Ecology 20, 5213-25. 15. Temperton B, Gilbert JA, Quinn JP, McGrath JW (2011) Novel Analysis of Oceanic Surface Water Metagenomes Suggests Importance of Polyphosphate Metabolism in Oligotrophic Environments. Plos One 6, e16499. (10.1371/journal.pone.0016499)
57 16. Turner AK, Begon M, Jackson JA, Bradley JE, Paterson S (2011) Genetic diversity in cytokines associated with immune variation and resistance to multiple pathogens in a natural rodent population. Plos Genetics 7, e1002343. 17. Van't Hof AE, Edmonds N, Dalíková M, Marec F, Saccheri IJ (2011) Industrial melanism in British peppered moths has a singular and recent mutational origin. Science 332, 958-960. 18. Webster LMI, Paterson S, Mougeot F, Martinez-Padilla J and Piertney SB (2011) Transcriptomic response of red grouse to gastro-intestinal nematode parasites and testosterone: implications for population dynamics. Molecular Ecology 20, 920-931. 19. Weynberg KD, Allen MJ, Gilg IC, Scanlan DJ, Wilson WH (2011) Genome sequence of Ostreococcus tauri virus OtV-2 enlightens the role of picoeukaryote niche separation in the ocean. Journal of Virology 85, 4520-4529. 20. White J, Gilbert J, Hill G, Hill E, Huse SM, Weightman AJ, Mahenthiralingam E (2011) Culture- independent analysis of bacterial fuel contamination provides insight into the level of concordance with the standard industry practice of aerobic cultivation. Applied and Environmental Microbiology 77, 4527-4538.
[NBAF-S]
1. Bataille A, Cunningham A, Cruz M, Cedeno V, Goodman S (2011) Adaptation, isolation by distance and human-mediated transport determine patterns of gene flow among populations of the disease vector Aedes taeniorhynchus in the Galapagos Islands. Infection, genetics and evolution, 11, 1996-2003. 2. Bicknell AWJ, Dawson DA, Horsburgh GJ, Knight ME, Bilton DT, Votier SC (2011) Characterisation and predicted genome locations of Leach's storm-petrel (Oceanodroma leucorhoa) microsatellite loci (Procellariidae, Aves). Conservation Genetics Resources, 3, 711- 716. 3. Brekke P, Bennett PM, Santure AW, Ewen JG (2011) High genetic diversity in the remnant island population of hihi and the genetic consequences of re-introduction. Molecular Ecology, 20, 29-45. 4. Bretman A, Rodríguez-Muñoz R, Walling CA, Slate J, Tregenza T, (2011) Fine-scale population structure, inbreeding risk and avoidance in a wild insect population. Molecular Ecology, 20, 3045- 3055. 5. Dellicour S, Frantz AC, Colyn M, Bertouille S, Chaumont F, Flamand MC (2011) Population structure and genetic diversity of red deer (Cervus elaphus) in forest fragments in north-western France. Conservation Genetics, 12, 1287-1297. 6. Dugdale HL, Pope LC, Newman C, Macdonald DW, Burke T (2011) Age-specific breeding success in a wild mammalian population: selection, constraint, restraint and senescence. Molecular Ecology, 20, 3261-3274. 7. Dugdale HL, Griffiths A, Macdonald DW (2011) Polygynandrous and repeated mounting behaviour in European badgers, Meles meles. Animal Behaviour, 82, 1287-1297. 8. Dugdale HL, Davison D, Baker SE, Ellwood SA, Newman C, Buesching CD, Macdonald DW (2011) Female teat size is a reliable indicator of annual breeding success in European badgers: genetic validation. Mammalian Biology, 76, 716-721. 9. Harrison XA, Bearhop S, Inger R, Colhoun K, Gudmundsson GA, Hodgson D, McElwaine G, Tregenza T (2011) Heterozygosity-fitness correlations in a migratory bird: an analysis of inbreeding and single-locus effects. Molecular Ecology, 20, 4786-4795. 10. Hegarty MJ, Batstone T, Barker GLA, Edwards KJ, Abbott RJ, Hiscock SJ (2011) Nonadditive changes to cytosine methylation as a consequence of hybridization and genome duplication in Senecio (Asteraceae). Molecular Ecology, 20, 105-113. 11. Holt BG, Côté IM, Emerson BC (2011) Searching for speciation genes: Molecular evidence for selection associated with colour morphotypes in the caribbean reef fish genus Hypoplectrus. PLoS ONE, 6, e20394. 12. Leadbeater E, Carruthers JM, Green JP, Rosser NS, Field J (2011) Nest inheritance is the missing source of direct fitness in a primitively eusocial insect. Science, 333, 874-876. 13. Lee JW, Hatchwell BJ (2011) Do females adjust brood sex ratio according to males’ genetic structure in a gregarious passerine, the vinous-throated parrotbill Paradoxornis webbianus? Journal of Avian Biology, 42, 447-453.
58 14. Lucas ER, Martins RP, Zanette LRS, Field J (2011) Social and genetic structure in colonies of the social wasp Microstigmus nigrophthalmus. Insectes Sociaux, 58,07-114. 15. Lucas ER, Martins RP, Field J (2011) Reproductive skew is highly variable and correlated with genetic relatedness in a social apoid wasp. Behavioral Ecology, 22, 337-344 16. Lucas ER, Field J (2011) Assured fitness returns in a social wasp with no worker caste. Proceedings of the Royal Society of London, B, 278, 2991-2995. 17. Mainwaring MC, Dickens M, Hartley IR (2011) Sexual dimorphism and growth trade-offs in Blue Tit Cyanistes caeruleus nestlings. Ibis 153, 175-179. 18. Martín-Gálvez D, Peralta-Sanchez JM, Dawson DA, Martin-Platero AM, Martinez-Bueno M, Burke T, Soler JJ (2011) DNA sampling from eggshell swabbing is widely applicable for wild bird populations as demonstrated in 23 species. Molecular Ecology Resources, 11, 481-493. 19. Morgan K, O'Loughlin SM, Chen B, Linton Y-M, Thongwat D, Somboon P, Fong MY, Butlin RK, Verity R, Prakash A, Pe Than Htun, Hlaing T, Nambanya S, Socheat D, Ho Dinh T, Walton C (2011) Comparative phylogeography reveals a shared impact of Pleistocene environmental change in shaping genetic diversity within nine Anopheles mosquito species across the Indo-Burma biodiversity hotspots. Molecular Ecology 20, 4533-4549. 20. Nam KB, Meade J, Hatchwell BJ (2011) Brood sex ratio variation in a cooperatively breeding bird. Journal of Evolutionary Biology, 24, 904-913. 21. Nam KB, Meade J, Hatchwell BJ (2011) Do parents and helpers adjust their provisioning effort in relation to nestling sex in a cooperatively breeding bird? Animal Behaviour, 82, 303-309. 22. Nelson-Flower MJ, Hockey PAR, O'Ryan C, Raihani NJ, du Plessis MA, Ridley AR (2011) Monogamous dominant pairs monopolize reproduction in the cooperatively breeding pied babbler. Behavioural Ecology, 22, 559-565. 23. Nouvellet P, Buesching CD, Dugdale HL, Newman C, Macdonald DW (2011) Mouthing off about developmental stress: Individuality of palate marking in the European badger and its relationship with juvenile wedellparasitoses. Journal of Zoology, 283, 52-62. 24. Phillips, R.A., McGill, R.A.R., Dawson, D.A. and Bearhop, S. (2011) Sexual segregation in distribution, diet and trophic level of seabirds: insights from stable isotope analysis. Marine Biology, 158, 2199-2208. 25. Piyapong C, Butlin RK, Faria JJ, Wang J and Krause J (2011) Kin assortment in juvenile shoals in wild guppy populations. Heredity, 106, 747-756. 26. Price TAR, Lewis Z, Smith DT, Hurst GDD, Wedell N (2011) Remating in the laboratory reflects rates of polyandry in the wild. Animal Behaviour, 82, 1381-1386. 27. Rodríguez-Muñoz R, Bretman A, Tregenza T (2011) Guarding males protect females from predation in a wild insect. Current Biology, 21, 1716-1719. 28. Sharp SP, Simeoni M, McGowan A, Nam K-B, Hatchwell BJ (2011) Patterns of recruitment, relatedness and cooperative breeding in two populations of long-tailed tits. Animal Behaviour, 81, 843-849. 29. Struebig MJ, Kingston T, Petit EJ, Le Comber SC, Zubaid A, Mohd-Adnan A and Rossiter SJ (2011) Parallel declines in species and genetic diversity in tropical forest fragments. Ecology Letters 14, 582-590. 30. Tawatao N, Harper NE, Mohamed M, Khen CV, Searle JB, Hill JK (2011) Impacts of forest fragmentation on the genetic diversity and population structure of Pachycondyla obscurans in Sabah, Malaysian Borneo. Asian Myrmecology 4, 59-68. 31. Vangestel C, Mergeay J, Dawson DA, Vandomme V, Lens L, (2011) Developmental stability covaries with genome-wide and single-locus heterozygosity in house sparrows. Plos One, 6, e21569. 32. Vangestel C, Mergeay J, Dawson DA, Vandomme V, Lens L (2011) Spatial heterogeneity in genetic relatedness among house sparrows along an urban gradient as revealed by individual-based analysis. Molecular Ecology, 20, 4643-4653. 33. Whiteside HM, Dawson DA, Soulsbury CD, Harris S (2011) Mother knows best: dominant females determine offspring dispersal in red foxes (Vulpes vulpes). Plos One, 6, e22145. 34. Zeale MRK, Butlin RK, Barker GLA, Lees DC, Jones G (2011) Taxon-specific PCR for DNA barcoding arthropod prey in bat faeces. Molecular Ecology Resources, 11, 236-244.
59 THESES
1. Adewoye AB (2011) PhD Thesis (University of Leicester) Genetic architecture and molecular mechanisms underlying light entrainment of the Drosophila circadian clock. (NBAF-E) 2. Bicknell A (2011) PhD Thesis (Plymouth University) Population structuring and dispersal in the highly pelagic leach’s storm-petrel: implications for the EU population. (NBAF-S) 3. Bochenek M (2011) PhD Thesis (University of East Anglia) Sulphur metabolism in Emiliania huxleyi: Insights from physiological and gene expression studies. (NBAF-E) 4. Brown DS (2011) PhD Thesis (University of Cardiff) Non-invasive molecular analysis of the food resources sustaining adders and smooth snakes. (NBAF-E/S) 5. Buckley J (2011) PhD Thesis (University of Bristol) Evolutionary responses to recent climate change during the recent range expansion of the butterfly Aricia agestis. (NBAF-LS) 6. Cole PA (2011) PhD Thesis (University of Birmingham). Nanoparticles in aqueous environments: A physicochemical and ecotoxicological study of cerium dioxide. (NBAF-B) 7. Davies S (2011) PhD Thesis (Imperial College London) A metabolomic approach to assessing life- history traits in Caenorhabditis elegans. (NBAF-B) 8. Fischer M (2011) PhD Thesis (University of Vancouver) (NBAF-L) 9. Fonseca V (2011) PhD Thesis (Bangor University) Defining marine meiofaunal genetic diversity using 454 sequencing. (NBAF-L) 10. Harper N (2011) PhD Thesis (University of York) Consequences of changes in genetic diversity during climate-driven range shifts. (NBAF-S) 11. Jan C (2011) PhD Thesis (University of Leeds) Population structure of swarming bats in relation to dispersal. (NBAF-S) 12. Lohse K (2011) PhD Thesis (University of Edinburgh) Inferring population history from genealogies. (NBAF-E) 13. Nettleship S (2011) PhD Thesis (University of Leicester) The impacts of river impoundments on the biology of the three-spined stickleback, Gasterosteus aculeatus. (NBAF-S) 14. Pascoal S (2011) PhD Thesis (University of Aveiro, Portugal) Nucella lapillus: imposex transcriptome analysis and phenotypic plasticity. (NBAF-L) 15. Raisin C (2011) PhD Thesis (University of Kent) Conservation genetics of the Mauritius parakeet (Psittacula echo). (NBAF-S) 16. Smith JA (2011) PhD Thesis (University of Birmingham) From nest building to life-history patterns: Does food supplementation influence reproductive behaviour of birds? (NBAF-S) 17. Strittmatter M (2011) PhD Thesis (University of the Highlands and Islands) Molecular biology of the Ectocarpus/Eurychasma pathosystem. (NBAF-L) 18. Syeda F (2011) PhD Thesis (University of Birmingham) Molecular and physiological basis for cold- induced angiogenesis in fish. (NBAF-L) 19. Tawatao N (2011) PhD Thesis (York University) Impacts of forest fragmentation on the community structure of ground-dwelling ants in Malaysian Borneo. (NBAF-S) 20. Taylor M (2011) PhD Thesis (Imperial College, London) Distribution and diversity of octocorals from longline by-catch around South Georgia, UK. (NBAF-E) 21. Tedder A (2011) PhD Thesis (University of Glasgow) Comparing the consequences of mating system shifts between different species of cruciferous plants in relation to phylogeography. (NBAF- L) 22. Vangestel C (2011) PhD Thesis. (University of Ghent, Belgium). Relating phenotypic and genetic variation to urbanization in avian species: a case study on House Sparrows (Passer domesticus). (NBAF-S) 23. Walsh N (2011) PhD thesis (University of Cambridge) Investigation into the genetic basis of carotenoid and melanin colouration in the red-billed quelea. (NBAF-EL) 24. Zeale M (2011) PhD thesis (University of Bristol) Conservation biology of the barbastelle (Barbastella barbastellus). Applications of spatial modelling, ecology and molecular analysis of diet. (NBAF-S)
60 [2010]
[joint nodes]
1. Creer S, Fonseca VG, Porazinska DL, Giblin-Davies RM, Sung W, Power DM, Packer M, Carvalho GR, Blaxter ML, Lambshead PJD, Thomas WK (2010) Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises. Molecular Ecology, 19, 4-20. (NBAF-E /L) 2. Fonseca VG, Carvalho GR, Sung W, Johnson HF, Power DM, Neill SP, Packer M, Blaxter ML, Lambshead PJD, Thomas WK, Creer S (2010) Second-generation environmental sequencing unmasks marine metazoan biodiversity. Nature Communications, 1, 98. (NBAF-E /L)
[NBAF-E] 27
1. Ács Z, Challis RJ, Bihari P, Blaxter M, Hayward A, Melika G, Csoka G, Penzes Z, Pujade-Villar J, Nieves-Aldrey JL, Schoenrogge K, Stone GN (2010) Phylogeny and DNA barcoding of inquiline oak gallwasps (Hymenoptera: Cynipidae) of the Western Palaearctic. Molecular Phylogenetics and Evolution 55, 210-225. 2. Bock C, Proschold T, Krienitz L (2010) Two new Dictyosphaerium-morphotype lineages of the Chlorellaceae (Trebouxiophyceae): Heynigia gen. nov. and Hindakia gen. nov. European Journal of Phycology. 45, 267-277. 3. Dadheech PK, Ballot A, Casper P, Kotut K, Novelo E, Lemma B, Pröschold T, Krienitz L (2010) Phylogenetic relationship and divergence among planktonic strains of Arthrospira (Oscillatoriales, Cyanobacteria) of African, Asian and American origin deduced by 16S-23S ITS and phycocyanin operon sequences. Phycologia, 49, 361-372. 4. Darienko T, Gustavs L, Mudimu O, Rad Menendez C, Schumann R, Karsten U, Friedl T, Pröschold T (2010) Chloroidium, a common terrestrial coccoid green alga previously assigned to Chlorella (Trebouxiopyceae, Chlorophyta). European Journal of Phycology, 45, 79-95. 5. Davey JL, Blaxter MW (2010) RADSeq: next-generation population genetics. Briefings in Functional Genomics, 9, 416-423. 6. Foxe P, Stift M, Tedder A, Haudry A, Wright SI Mable BK (2010) Reconstructing origins of loss of self-incompatibility and selfing in North American Arabidopsis lyrata: a population genetic context. Evolution 64, 3495-3510. (10.1111/j.1558-5646.2010.01094.x) 7. Galindo J, Grahame JW, Butlin RK (2010) An EST-based genome scan using 454 sequencing in the marine snail Littorina saxatilis. Journal of Evolutionary Biology, 23, 2004-2016. 8. Jardillier L, Zubkov MV, Pearman J, Scanlan DJ (2010) Significant CO2 fixation by small prymnesiophytes in the subtropical and tropical northeast Atlantic Ocean. ISME J, 4, 1180-1192. 9. Kaartinen R, Stone GN, Hearn J, Lohse K, Roslin T (2010) Revealing secret liaisons: DNA bar- coding changes our understanding of food webs. Ecological Entomology, 35, 623-638. 10. Katsaros C, Varvarigos V, Gachon CMM, Brand J, Motomura T, Nagasato C, Küpper FC (2010) Comparative immunofluorescence and ultrastructural analysis of microtubule organization combined with SSU / ITS sequencing in Uronema sp., Klebsormidium flaccidum, K. subtilissimum, Stichococcus bacillaris and S. chloranthus (Chlorophyta). Protist, 162, 315-31. 11. Katsiadaki I, Williams TD, Ball J, Bean TP, Wu H, Santos EM, Brown MM, Baker P, Ortega F, Falciani F, Craft JA, Tyler CR, Viant M, Chipman JK (2010) Hepatic Transcriptomic and Metabolomic Responses in the Stickleback (Gasterosteus aculeatus) Exposed to ethinyl-estradiol. Aquatic Toxicology, 97, 174-187. 12. Kher CP, Doerder FP, Cooper J, Ikonomi P, Achilles-Day UEM, Küpper FC, Lynn DH (2010) Barcoding Tetrahymena: Discriminating species and identifying unknowns using the cytochrome c oxidase subunit I (cox-1) barcode. Protist, 162, 2-13. 13. Krienitz L, Bock C, Luo W, Pröschold T (2010) Polyphyletic origin of the Dictyosphaerium morphotype within Chlorellaceae (Trebouxiophyceae). Journal of Phycology, 46.
61 14. Leaver MJ, Diab A, Boukouvala E, Williams TD, Chipman JK, Moffat CF, Robinson CD, George SG (2010) Hepatic gene expression in flounder chronically exposed to multiply polluted estuarine sediment: Absence of classical exposure ‘biomarker’ signals and induction of inflammatory, innate immune and apoptotic pathways. Aquatic Toxicology, 96, 234-245. 15. Lohse K, Sharanowski B, Stone GN (2010) Quantifying the Pleistocene history of the oak gall parasitoid Cecidostiba fungosa using twenty intron loci. Evolution, 64, 2664-2681. 16. Luo W, Pröschold T, Bock C, Krienitz L (2010) Generic concept in Chlorella-related coccoid green algae (Chlorophyta, Trebouxiophyceae). Plant Biology, 12, 545-553. 17. Nicholls JA, Preuss S, Hayward A, Melika G, Csoka G, Nieves-Aldrey JL, Askew RR, Tavakoli M, Schoenrogge K, Stone GN (2010) Concordant phylogeography and cryptic speciation in two Western Palaearctic oak gall parasitoid species complexes. Molecular Ecology, 19, 592-609. 18. Nicholls JA, Fuentes-Utrilla P, Hayward A, Melika G, Csóka G, Nieves-Aldrey J-L, Pujade-Villar J, Tavakoli M, Schönrogge K, Stone GN (2010) Community impacts of anthropogenic disturbance: natural enemies exploit multiple routes in pursuit of invading herbivore hosts. BMC Evolutionary Biology, 10, 322. 19. Piertney SB, Webster LMI (2010) Characterising functionally important and ecologically meaningful genetic diversity using a candidate gene approach. Genetica, 138, 419-432. 20. Proschold T, Bock C, Luo W, Krienitz L (2010) Polyphyletic distribution of bristle formation in Chlorellaceae: Micractinium, Diacanthos, Didymogenes and Hegewaldia gen. nov (Trebouxiophyceae, Chlorophyta). Phycological Research, 58, 1-8. 21. Ruiz-Guajardo JC, Schnabel A, Ennos R, Preuss S, Otero-Arnaiz A, Stone GN (2010) Landscape genetics of the key African acacia species Senegalia mellifera (Vahl) - the importance of the Kenyan Rift Valley. Molecular Ecology, 19, 5126-5139. 22. Santos EM, Ball JS, Williams TD, Wu H, Ortega F, van Aerle R, Katsiadaki I, Falciani F, Viant MR, Chipman JK, Tyler CR (2010) Identifying health impacts of exposure to copper using transcriptomics and metabolomics in a fish model. Environmental Science & Technology, 44, 820- 826. 23. Small HJ, Williams TD, Sturve J, Chipman JK, Southam AD, Bean TP, Lyons B, Stentiford GD (2010) Gene expression analyses of hepatocellular adenoma and hepatocellular carcinoma from the marine flatfish Limanda limanda. Diseases of Aquatic Organisms, 88,127-141. 24. Swain S, Wren JF, Sturzenbaum SR, Kille P, Morgan AJ, et al. (2010) Linking toxicant physiological mode of action with induced gene expression changes in Caenorhabditis elegans. BMC Systems Biology, 4, 32. 25. Tedder A, Hoebe PN, Ansell SW Mable BK (2010) Using chloroplast genes for phylogeography in Arabidopsis lyrata. Diversity 2, 653-678. (10.3390/d2040653) 26. Tralau T, Yang EC, Tralau C, Cook AM, Küpper FC (2010) Why two are not enough – degradation of p-toluenesulfonate by a bacterial consortium from a pristine site in Moorea, French Polynesia. FEMSLE, 316, 123-129. 27. Yang EC, Scott J, West JA, Orlova E, Gauthier D, Küpper FC, Yoon HS, Karsten U (2010) New taxa of the Porphyridiophyceae (Rhodophyta): Timspurckia oligopyrenoides gen. et sp. nov. and Erythrolobus madagascarensis sp. nov. Phycologia, 49, 604-616.
[NBAF-L] 19
1. Andre J, King RA, Stürzenbaum SR, Kille P, Hodson ME, Morgan AJ (2010) Molecular genetic differentiation in earthworms inhabiting a heterogeneous Pb-polluted landscape. Environmental Pollution, 158, 883-890. 2. Andre J, Stürzenbaum SR, Kille P, Morgan AJ, Hodson ME (2010) Metal bioaccumulation and cellular fractionation in an epigeic earthworm (Lumbricus rubellus): the interactive influences of population exposure histories, site-specific geochemistry and mitochondrial genotype. Soil Biology and Biochemistry, 42, 1566-1573. 3. Charlesworth D, Qiu S, Bergero R, Ågren JA, Wright SI (2010) Using DNA sequence diversity to test for selection in Silene. International Journal of Plant Sciences, 171, 1072-1082.
62 4. Craft JA, Gilbert JA, Temperton B, Dempsey KE, Ashelford K, Tiwari B, Hutchinson TH, Chipman JK (2010). Pyrosequencing of Mytilus galloprovincialis cDNAs: tissue- specific expression patterns. PLoS One, 5, e8875. 5. Creer S (2010) Second-generation sequencing derived insights into the temporal biodiversity dynamics of freshwater protists. Molecular Ecology, 19, 2829-2831. 6. Fischer MG, Allen MJ, Wilson WH, Suttle CA (2010) Giant virus with a remarkable complement of genes infects marine zooplankton. PNAS, 107, 19508-19513. 7. Gilbert JA (2010) Beyond the Infinite – tracking bacterial gene expression. Microbiology Today 37, 82-85. 8. Gilbert JA, Meyer F, Field D, Schriml LM, Garrity GM (2010) Metagenomics: A foundling finds its feet. Standards in Genomic Science 3, 2. 9. Gilbert JA, Field D, Swift P, Thomas S, Cummings D, et al. (2010) The Taxonomic and Functional Diversity of Microbes at a Temperate Coastal Site: A ‘Multi-Omic’ Study of Seasonal and Diel Temporal Variation. PLoS ONE 5, e15545. (10.1371/journal.pone.0015545) 10. Kaiser VB, Bergero R, Charlesworth D (2010) A new plant sex-linked gene with high sequence diversity and possible introgression of the X copy. Heredity, 106, 339-347. 11. Mitra S, Gilbert JA, Field D, Huson DH (2010) Comparison of multiple metagenomes using phylogenetic networks based on ecological indices. ISME Journal 4, 1236-1242. 12. Mitra S, Rupek P, Urich T, Gilbert JA, Meyer F, Huson DH (2010) Functional analysis of meta- genomes and –transcriptomes using SEED and KEGG. BMC Bioinformatics 12(Suppl 1), S12+. 13. O'Meara H, Barber R, Mello LV, Sangaralingam A, Viney ME, Paterson S (2010) Response of the Strongyloides ratti transcriptome to host immunological environment. International Journal for Parasitology, 40, 1609-1617. 14. Paterson S, Vogwill T, Buckling A, Benmayor R, Spiers AJ, Thomson NR, Quail M, Smith F, Walker D, Libberton B, Fenton A, Hall N, Brockhurst MA (2010) Antagonistic coevolution accelerates molecular evolution. Nature, 464, 275-278. 15. Qiu S, Bergero R, Forrest A, Kaiser VB, Charlesworth D (2010) Nucleotide diversity in Silene latifolia autosomal and sex-linked genes. Proc. R. Soc. Lond. B, 277, 3283-3290. 16. Qiu S, Bergero R, Zeng K, Charlesworth D (2010) Patterns of codon usage bias in Silene latifolia. Molecular Biology and Evolution, 28, 771-780. 17. Schriml LM, Arze C, Nadendla S, Ganapathy A, Felix V, Mahurkar A, Phillippy K, Gussman A, Angiuoli S, Ghedin E, White O, Hall N. (2010) GeMInA, genomic metadata for infectious agents, a geospatial surveillance pathogen database. Nucleic Acids Research, 38, D754 - D764. 18. Van Aggelen G, Ankley GT, Baldwin WS, Bearden DW, Benson WH, Chipman JK, Collette TW, Craft JA, Denslow ND, Embry MR, Falciani F, George SG, Helbing CC, Hoekstra PF, Iguchi T, Kagami Y, Katsiadaki I, Kille P, Liu L, Lord PG, McIntyre T, O'Neill A, Osachof (2010) Integrating omic technologies into aquatic ecological risk assessment and environmental monitoring: hurdles, achievements, and future outlook. Environmental Health Perspective 118. 19. Yasmin A, Kenny JG, Shankar J, Darby AC, Hall N, Edwards C, Horsburgh MJ (2010) Comparative genomics and transduction potential of Enterococcus faecalis temperate bacteriophages. Journal of Bacteriology, 192, 1122 - 1130.
[NBAF-S] 50
1. Balestrieri A, Remonti L, Frantz AC, Capelli E, Zenato M, Dettori EE, Guidali F, Prigioni C (2010) Efficacy of passive hair-traps for the genetic sampling of a low-density badger population. Hystrix-Italian journal of mammalogy 21, 137-146. 2. Ball AD, Stapley J, Dawson DA, Birkhead TR, Burke T, Slate J (2010) A comparison of SNPs and microsatellites as linkage mapping markers: lessons from the zebra finch (Taeniopygia guttata). BMC Genomics, 11, 218. 3. Bataille A, AA Cunningham, M Cruz, V Cedeño, SJ Goodman (2010) Seasonal effects and fine- scale population dynamics of Aedes taeniorhynchus, a major disease vector in the Galapagos Islands. Molecular Ecology, 19, 4491-4505.
63 4. Bourke BP, Frantz AC, Lavers CP, Davison A, Dawson DA, Burke TA (2010) Genetic signatures of population change in the British golden eagle (Aquila chrysaetos). Conservation Genetics, 11, 1837-1846. 5. Brekke P, Bennett PM, Wang, J, Pettorelli N, Ewen JG (2010) Sensitive males: inbreeding depression in an endangered bird. Proc R Soc Lond B, 277, 3677-3684. 6. Clegg SM and Phillimore AB (2010) The influence of gene flow and drift on genetic and phenotypic divergence in two species of Zosterops in Vanuatu. Phil Trans R Soc B, 365, 1077- 1092. 7. Couvillon MJ, Hughes WOH, Perez-Sato JA, Martin SJ, Ratnieks FLW (2010) Sexual selection in honeybees: colony variation and the importance of size in male mating success. Behavioral Ecology, 21, 520-525. 8. Dawson DA, Horsburgh GJ, Küpper C, Stewart IRK, Ball AD, Durrant KL, Hansson B, Bacon I, Bird S, Klein Á, Lee J-W, Martín-Gálvez D, Simeoni M, Smith G, Spurgin LG, Burke T (2010) New methods to identify conserved microsatellite loci and develop primer sets of high utility – as demonstrated for birds. Molecular Ecology Resources, 10, 475-494. 9. Dos Remedios N, Lee PLM, Szekely T, Dawson DA, Kupper C (2010) Molecular sex-typing in shorebirds: a review of an essential method for research in evolution, ecology and conservation. Wader Study Group Bulletin, 117, 109-118. 10. Dugdale HL, Nouvellet P, Pope LC, Burke T, Macdonald DW (2010) Fitness measures in selection analyses: sensitivity to the overall number of offspring produced in a lifetime. Journal of Evolutionary Biology, 23, 282-292. 11. Dugdale HL, Ellwood SA, Macdonald DW (2010) Alloparental behaviour and long-term costs of mothers tolerating other members of the group in a plurally breeding mammal. Animal Behaviour, 80, 721–735. 12. Durrant KL, Dawson DA, Burke T, Birkhead TR (2010) The unusual sperm morphology of the Eurasian Bullfinch (Pyrrhula pyrrhula) is not due to the phenotypic result of genetic reduction. Auk, 127, 832-840. 13. Frantz AC, Schley L, Schaul M, Balestrieri A, Roper TJ (2010) Spatial organisation of badgers (Meles meles) in a medium-density population in Luxembourg. Hystrix - Italian Journal of Mammalogy, 21, 3-18. 14. Frantz AC, Do Linh San E, Pope LC, Burke T (2010) Using genetic methods to investigate dispersal in two badger (Meles meles) populations with different ecological characteristics. Heredity, 104, 493-501. 15. Frantz AC, Pope LC, Etherington TR, Wilson GJ, Burke T (2010) Using isolation-by-distance- based approaches to assess the barrier effect of linear landscape elements on badger (Meles meles) dispersal. Molecular Ecology, 19, 1663-1674. 16. Freeland J, Biss PM, Conrad KF, Silvertown J (2010) Selection pressures have caused genome- wide population differentiation of Anthoxanthum odoratum despite the potential for high gene flow. Journal of Evolutionary Biology, 4, 776-782. 17. Goerlitz H, Ter Hofstede HM, Zeale MRK, Jones G, Holderied MW (2010) An aerial-hawking bat uses stealth echolocation to counter moth hearing. Current Biology, 20, 1568-1572. 18. Hansson B, Ljungqvist M, Dawson DA, Mueller JC, Olano-Marin J, Ellegren H, Nilsson J-Å (2010) Avian genome evolution: insights from a linkage map of the blue tit (Cyanistes caeruleus). Heredity, 104, 67-78. 19. Harrison TJE, Martin GR, Smith JA, Chamberlain DE, Bearhop S, Robb GN, Reynolds SJ (2010) Does food supplementation really enhance productivity in breeding birds? Oecologia 164, 311- 320. (10.1007/s00442-010-1645-x) 20. Harrison XA, Dawson DA, Horsburgh GJ, Tregenza T, Bearhop S (2010) Isolation, characterisation and predicted genome locations of light-bellied Brent goose (Branta bernicla hrota) microsatellite loci (Anatidae, AVES). Conservation Genetics Resources, 2, 365-371. 21. Harrison XA, Tregenza T, Inger R, Colhoun K, Dawson DA, Gudmundsson GA, Hodgson DJ, Horsburgh GJ, McElwaine G, Bearhop S (2010) Cultural inheritance drives site fidelity and migratory connectivity in a long distance migrant. Molecular Ecology, 19, 5484-5496. 22. Hlaing T, Tun-Lin W, Somboon P, Socheat D, Setha T, Min S, Thaung S, Anyaele O, de Silva B, Chang MS, Walton C (2010) Spatial genetic structure in Aedes aegypti mosquitoes in mainland Southeast Asia. Evolutionary Applications, 3, 319-339.
64 23. Jan CMI, Frith K, Glover AM, Butlin RK, Scott CD, Greenaway F, Ruedi M, Frantz AC, Dawson DA, Altringham JD (2010) Myotis alcathoe in the UK. Acta Chiropterologica, 12, 471-483. 24. Johnson PCD, Hadfield JD, Webster LMI, Adam A, Mable BK, Keller LF (2010) Bayesian paternity analysis and mating patterns in a parasitic nematode, Trichostrongylus tenuis. Heredity, 104, 573- 582. 25. Kuepper C, Kosztola A, Augustin J, Dawson DA, Burke T, Szekely T (2010) Heterozygosity–fitness correlations of conserved microsatellite markers in Kentish plovers Charadrius alexandrinus. Molecular Ecology 19, 5172–5185. 26. Leadbeater E, Carruthers JM, Green JP, van Heusden J, Field J (2010) Unrelated helpers in a primitively eusocial wasp: is helping tailored towards direct fitness? Plos One, 5, e11997. 27. Lee JW, Simeoni M, Burke T, Hatchwell BJ (2010) The consequences of winter flock demography for genetic structure and inbreeding risk in vinous-throated parrotbills, Paradoxornis webbianus. Heredity, 104, 472-481. 28. Lee JW, YK Lee & BJ Hatchwell (2010). Natal dispersal and philopatry in a group-living but non- cooperative passerine bird, the vinous-throated parrotbill. Animal Behaviour, 79, 1017-1023 29. Lee JW, MS Kim & BJ Hatchwell (2010). Parental provisioning behaviour in a flock-living bird: the vinous-throated parrotbill Paradoxornis webbianus. Journal of Ornithology, 151, 483-490 30. Lifjeld JT, Marthinsen G, Myklebust M, Dawson DA, Johnsen A (2010) A wild marsh warbler × sedge warbler hybrid (Acrocephalus palustris × A. schoenobaenus) in Norway documented with molecular markers. Journal of Avian Biology, 151, 513-517. 31. Meade J, Hatchwell BJ (2010) No direct fitness benefits of helping in a cooperative breeder despite higher survival of helpers. Behavioral Ecology, 21, 1186-1194. 32. Meade J, Nam K-B, Beckerman AP, Hatchwell BJ (2010) Consequences of load-lightening for future indirect fitness gains by helpers in a cooperatively breeding bird. Journal of Animal Ecology, 79, 529-537. 33. Morgan K, Linton YM, Somboon P, Saikia P, Dev V, Socheat D, Walton C (2010) Inter-specific gene flow dynamics during the Pleistocene-dated speciation of forest-dependent mosquitoes in Southeast Asia. Molecular Ecology, 19, 2269-85. 34. Nam KB, Simeoni M, Sharp SP, Hatchwell BJ (2010) Kinship affects investment by helpers in a cooperatively breeding bird. Proceedings of the Royal Society of London B, 277, 3299-3306. 35. Olano-Marin J, Dawson DA, Girg A, Hansson B, Ljungqvist M, Kempenaers B, Mueller JC (2010) A genome-wide set of 106 microsatellite markers for the blue tit (Cyanistes caeruleus). Molecular Ecology Resources, 10, 516-532. 36. Pillay K, Dawson DA, Horsburgh GJ, Perrin MR, Burke T, Taylor TD (2010) Twenty-two polymorphic microsatellite loci aimed at detecting illegal trade in the Cape parrot Poicephalus robustus (Psittacidae, AVES). Molecular Ecology Resources, 10, 142-149. 37. Price TAR, Lewis Z, Smith DT, Hurst GDD, Wedell N (2010) Sex ratio drive promotes sexual conflict and sexual coevolution in the fly Drosophila pseudoobscura. Evolution, 64, 1504-1509. 38. Price TAR, Hurst GDD, Wedell N (2010) Polyandry prevents extinction. Current Biology, 20, 471-475. 39. Raihani NJ, Nelson-Flower MJ, Golabek KA, Ridley AR (2010) Routes to breeding in cooperatively breeding pied babblers Turdoides bicolor. Journal of Avian Biology, 41, 681-686. 40. Raihani NJ, Nelson-Flower MJ, Moyes K, Browning LE, Ridley AR (2010) Synchronous provisioning increases brood survival in cooperatively breeding pied babblers. Journal of Animal Ecology, 79, 44-52. 41. Riou S, Chastel O, Lacroix A, Hamer KC (2010) Stress and parental care: Prolactin responses to acute stress throughout the breeding cycle in a long-lived bird. General and Comparative Endocrinology, 168, 8-13. 42. Rodríguez-Muñoz R, Bretman A, Slate J, Walling CA, Tregenza T (2010) Natural and sexual selection in a wild insect population. Science, 328, 1269. 43. Salmona J, Dawson DA, Fouillot D, Ghestemme T, Thebaud C, Chikhi L, Salamolard M (2010) The utility of existing passerine microsatellite markers for genetic studies in endangered species: as demonstrated for a critically endangered forest bird endemic to Réunion Island, the Réunion cuckooshrike (Coracina newtoni) Conservation Genetic Resources, 2, 361-364.
65 44. Schmalenberger A, Telford A, Kertesz M (2010) Sulfate treatment affects desulfonating bacterial community structures in Agrostis rhizospheres as revealed by functional gene analysis based on asfA. European Journal of Soil Biology, 46, 248-254. 45. Schmalenberger A and Noll M (2010) Shifts in desulfonating bacterial communities along a soil chronosequence in the forefield of a receding glacier. FEMS Microbiology Ecology, 71, 208-217. 46. St Clair JJH, Küpper C, Herrmann P, Woods RW, Székely T (2010) Unusual incubation sex-roles in the Rufous-chested Dotterel Charadrius modestus. Ibis 152, 402-404. 47. Thaxter CB, Wanless S, Daunt F, Harris MP, Benvenuti S, Watanuki Y, Gremillet D, Hamer KC (2010) Influence of wing loading on trade-off between pursuit-diving and flight in common guillemots and razorbills. Journal of Experimental Biology, 213, 1018-1025. 48. Vangestel C, Braeckman BP, Matheve H, Lens L (2011) Constraints on home range behaviour affect nutritional condition in urban house sparrows (Passer domesticus) Biological Journal of the Linnean Society, 101, 41-50. 49. Wang J, Brekke P, Huchard E, Knapp LA, Cowlishaw G (2010) Estimation of parameters of inbreeding and genetic drift in populations with overlapping generations. Evolution, 64, 1704- 1718. 50. Worley K, Collet J, Spurgin LG, Cornwallis C, Pizzari T, Richardson DS (2010) MHC heterozygosity and survival in red junglefowl. Molecular Ecology 15, 3064-3075.
THESES 18
1. Bacon IE (2010) PhD thesis (University of Edinburgh) Foraging on variable resources: the behaviour and decision making of rufous hummingbirds. (NBAF-S) 2. Black R (2010) PhD Thesis (Imperial College, London). The evolutionary ecology of island birds. (NBAF-S) 3. Casewell NR (2010) PhD Thesis (Bangor University). The genetic basis of venom variation in the genus Echis: causes, correlates and consequences. (NBAF-E) 4. Cousins CR (2010) PhD Thesis (University College London) An Astrobiological Study of High Latitude Martian Analogue Environments. (NBAF-E) 5. Davey JS (2010) PhD Thesis (Cardiff University). Intraguild Predation Among Generalist Predators in Winter Wheat. (NBAF-S) 6. Harrison X (2010) PhD Thesis (University of Exeter). Causes and consequences of variation in dispersal strategy in an arctic migrant, the light-bellied brent goose (Branta bernicla hrota). (NBAF- S) 7. Kaiser V (2010) PhD Thesis (University Edinburgh), Molecular evolution under low recombination. (NBAF-L) 8. Kirkham AR (2010) PhD Thesis ((University of Warwick), Molecular ecology of photosynthetic picoeukaryotes. (NBAF-E). 9. Komissarova A (2010) PhD Thesis (University of Aberdeen). Partial migration in robins. (NBAF- S) 10. Marsden CD (2010) PhD Thesis (University of Glasgow) Evolutionary & ecological genetics of African wild dogs. (NBAF-E) 11. Mifsud DV (2010) PhD Thesis (University of Aberdeen). Speciation genetics in the Jaera albifrons group of intertidal isopods. (NBAF-S) 12. Morgan K (2010) PhD Thesis (University of Manchester). Determining the processes generating biodiversity in Southeast Asia using Anopheles mosquitoes. (NBAF-L) 13. Nam K-B (2010) PhD Thesis (University of Sheffield). Investment strategies by parents and helpers in the cooperatively breeding long-tailed tit Aegithalos caudatus. (NBAF-S) 14. Nelson-Flower MJ (2010) PhD Thesis (University of Cape Town). Kinship and its consequences in the cooperatively breeding Southern Pied Babbler Turdoides bicolor. (NBAF-S) 15. Pagarete (2010) PhD Thesis (L'Université Pierre et Marie Curie - Paris VI). Functional genomics of coccolithophore viruses. (NBAF-L) 16. Poland G (2010) MSc Thesis (University of Sheffield) Assigning sex to avian osteological remains: a review of current methods and an investigation into a novel, independent, biomolecular method. (NBAF-S)
66 17. Tucker R (2010) MSc Thesis (University of Kent). Characterisation of Seychelles paradise flycatcher microsatellite markers. (NBAF-S) 18. White J (2010) PhD Thesis (Cardiff University). Molecular ecology and biology of hydrocarbon fuel contaminating bacteria. (NBAF-L)
67 [2009]
CHAP / BOOK (1) 1. Li W, Olohan L, Williams D, Hughes MA, Gracey AY, Cossins AR (2009) Application of ESTs in Microarray Analysis in Expressed Sequence Tags (ESTs): Generation and Analysis. Methods in Molecular Biology: Methods and Protocols, vol 533 (Edited by Parkinson J). Humana Press, Boca Raton. (NBAF-L)
[Joint nodes] 1. Allen M, Cossins A, Hall N, Blaxter M, Burke T, Field D (2009) Use of microarrays to study environmentally relevant organisms: a UK perspective. Environmental Research Journal, 3, 465- 480. [NBAF-E/L/S]. 2. Gilbert JA, Thomas S, Cooley NA, Kulakova A, Field D, Booth T, McGrath JW, Quinn JP, Joint I (2009) Potential for phosphonoacetate utilisation by marine bacteria in temperate coastal waters. Environmental microbiology, 11, 111-25. [NBAF-E/L].
[NBAF-E] 21 1. Amin SA, Green DH, Hart MC, Küpper FC, Sunda WG, Carrano CJ (2009) Photolysis of iron- siderophore chelates promotes bacterial-algal mutualism. PNAS, 106, 17071-17076. 2. Casewell NR, Harrison RA, Wuester W, Wagstaff SC (2009) Comparative venom gland transcriptome surveys of the saw-scaled vipers (Viperidae: Echis) reveal substantial intra-family gene diversity and novel venom transcripts. BMC Genomics. 10, 564. 3. Gachon CMM, Strittmatter M, Müller DG, Kleinteich J, Küpper FC, (2009) Detection of differential host susceptibility to the marine oomycete pathogen Eurychasma dicksonii detected by real time PCR: not all algae are equal. Applied and Environmental Microbiology, 75, 322-8. 4. Hegarty MJ, Barker GL, Brennan AC, Edwards KJ, Abbott RJ, Hiscock SJ (2009) Extreme changes to gene expression associated with homoploid hybrid speciation. Molecular Ecology, 18, 877-889. 5. Hoebe PN, Stift M, Tedder A, Mable BK (2009) Multiple losses of self-incompatibility in North- American Arabidopsis lyrata? Phylogeographic context and population genetic consequences. Molecular Ecology 18, 4294-4939. (10.1111/j.1365-294X.2009.04400.x) 6. Johnston IA, Lee HT, Macqueen DJ, Paranthaman K, Kawashima C, Anwar A, Kinghorn JR, Dalmay T (2009) Embryonic temperature affects muscle fibre recruitment in adult zebrafish: genomewide changes in gene and microRNA expression associated with the transition from hyperplastic to hypertrophic growth phenotypes. The Journal of Experimental Biology, 212,1781- 1793. 7. Kalujnaia S, Powell B, Osborne CJ, Martinez A-S, Cutler CP, Cramb G (2009) Intestinal expression of Aquaporins in the European eel Anguilla Anguilla: effects of SW acclimation on isoform expression. Glasgow, 2009. Comp. Biochem. Physiol. A3.4, S78. 8. Kalujnaia S, Osborne CJ, Cramb G (2009) Osmolytes and osmoregulation in the euryhaline European eel, Anguilla anguilla. SEB, Glasgow, 2009. Comp. Biochem. Physiol. A3.14, S81. 9. Kalujnaia S, Cramb G (2009) Regulation of expression of the myo-inositol mono-phosphatase 1 (IMPA1) gene in osmoregulatory tissues of the European eel Anguilla anguilla after sea water acclimation. Ann. N.Y. Acad Sci, 1163, 433-436. 10. Kalujnaia S, Wilson GD, Feilen AL, Cramb G (2009) Guanylin-like peptides, guanylate cyclase and osmoregulation in the European eel (Anguilla anguilla). Gen. Comp. Endocrinol. 161, 103- 114. 11. Keightley PD, Trivedi U, Thomson M, Oliver F, Kumar S, Blaxter ML (2009) Analysis of the genome sequences of three Drosophila melanogaster spontaneous mutation accumulation lines. Genome Research, 19, 1195-201. 12. Last KS, Bailhachet T, Kramer C, Kyriacou CP, Rosato E, Olive PJW (2009) Tidal, daily, and lunar-day activity cycles in the marine polychaete Nereis virens. Chronobiology International, 26, 167-183.
68 13. Lepère C, Vaulot D, Scanlan DJ (2009). Photosynthetic picoeukaryote community structure in the South East Pacific Ocean encompassing the most oligotrophic waters on Earth. Environmental Microbiology, 11, 3105-3117. 14. Marsden CD, Mable BK, Woodroffe R, Rasmussen GSA, Cleaveland S, McNutt JW, Thomas R, Kennedy LJ (2009) Highly endangered African wild dogs (Lycaon pictus) lack variation at the Major Histocompatibility Complex. Journal of Heredity, 100, Suppl 1, S54-S65. 15. McTaggart SJ, Conlon C, Colbourne JK, Blaxter ML, Little TJ (2009) The components of the Daphnia pulex immune system as revealed by complete genome sequencing. BMC Genomics, 10, 175. 16. Osuna-Jimenez I, Williams TD, Prieto-Alamo MJ, Abril N, Chipman JK, Pueyo C (2009) Immune- and stress-related transcriptomic responses of Solea senegalensis stimulated with lipopolysaccharide and copper sulphate using heterologous cDNA microarrays. Fish and Shellfish Immunology, 26, 699-706. 17. Quicke DLJ, Laurenne NM, Fitton MG, Broad GR (2009) A thousand and one wasps: a 28S rDNA and morphological phylogeny of the Ichneumonidae (Insecta: Hymenoptera) with an investigation into alignment parameter space and elision. Journal of Natural History, 43, 1305- 1421. 18. Stone GN, Hernandez-Lopez A, Nicholls JA, di Pierro E, Pujade-Villar J, Melika G, Cook JM (2009) Extreme host plant conservatism during at least 20 million years of host plant pursuit by oak gallwasps. Evolution, 63, 854-869. 19. Sturzenbaum SR, Andre J; Kille P, et al (2009) Earthworm genomes, genes and proteins: the (re)discovery of Darwin's worms. PRSB, 276, 789-797. 20. Weinert LA, Werren JH, Aebi A, Stone GN, Jiggins FM (2009) Evolution and diversity of Rickettsia bacteria. BMC Biology, 7, 6. 21. Williams TD, Wu Huifeng, Santos EM, Ball J, Katsiadaki I, Brown MM, Baker P, Ortega F, Falciani F, Craft JA, Tyler CR, Chipman JK, Viant MR (2009) Hepatic transcriptomic and metabolomic responses in the stickleback (Gasterosteus aculeatus) exposed to environmentally- relevant concentrations of dibenzanthracene. Environmental Science Technology, 43, 6341–6348.
[NBAF-L] 18 1. Bontell I, Hall N, Ashelford KE, Dubey JP, Boyle JP, Lindh J, Smith JE (2009) Whole genome sequencing of a natural recombinant Toxoplasma gondii strain reveals chromosome sorting and local allelic variants. Genome Biology, 10, r53. (10.1186/gb-2009-10-5-r53) 2. Brownridge P, de Mello, LV, Peters M, McLean L, Claydon A, Cossins AR, Whitfield PD, Young IS (2009) Regional variation in parvalbumin isoform expression correlates with muscle performance in common carp (Cyprinus carpio). Journal of Experimental Biology, 212, 184-193. 3. Filatov DA (2009) Processing and population genetic analysis of multigenic datasets with ProSeq3 software. Bioinformatics, 25, 3189-3190. 4. Gilbert JA, Field D, Swift P, Newbold L, Oliver A, Smyth T, Somerfield P, Huse S, Joint I (2009) The seasonal structure of microbial communities in the Western English Channel. Environmental Microbiology, 11, 3132–3139. 5. Kaiser VB, Bergero R, Charlesworth D (2009) SlCyt, a newly identified sex-linked gene, has recently moved onto the X chromosome in Silene latifolia (Caryophyllaceae). Molecular Biology and Evolution, 26, 2343-2351. 6. Li W, Gracey AY, Mello LV, Brass A, Cossins AR (2009) ExprAlign - the identification of ESTs in non-model species by alignment of cDNA microarray expression profiles. BMC Genomics, 10, 560. 7. Mello, LV, O'Meara, H, Rigden, DJ and Paterson, S (2009) Identification of novel aspartic proteases from Strongyloides ratti and characterisation of their evolutionary relationships, stage- specific expression and molecular structure. BMC Genomics, 10, 611. (10.1186/1471-2164-10- 611) 8. Millard A, Zwirglmaier K, Downey MJ, Mann NH, Scanlan DJ (2009) Comparative genomics of marine cyanomyoviruses reveals the widespread occurrence of Synechococcus host genes localized to a hyperplastic region: implications for mechanisms of cyanophage evolution. Environmental Microbiology, 11, 2370-2387. 9. Olohan, LA, Li W, Wulff, T, Jarmer H, Gracey AY, Cossins, AR (2009) Detection of anoxia-
69 responsive genes in cultured cells of the rainbow trout Oncorhynchus mykiss (Walbaum), using an optimized, genome-wide oligoarray. Journal of Fish Biology, 76, 2170–2186. 10. Popesku JT, Martyniuk CJ, Mennigen J, Xiong H, Zhang D, Xia X, Cossins AR, Trudeau VL (2009) The goldfish (Carassius auratus) as a model for neuroendocrine signalling. Molecular and Cellular Endocrinology, 293, 43-56. 11. Quince C, Lanzén A, Curtis TP, Davenport RJ, Hall N, Head IM, Read LF, Sloan WT (2009) Accurate determination of microbial diversity from 454 pyrosequencing data. Nature Methods, 6, 639–641. 12. Reilly SC, Kipar A, Hughes DJ, Quinn JP, Cossins AR and Sneddon LU (2009) Investigation of Van Gogh-like 2 mRNA regulation and localisation in response to nociception in the brain of adult common carp (Cyprinus carpio). Neuroscience Letters, 465, 290-294. 13. Reilly, SC, Quinn JP, Cossins AR and Sneddon LU (2009) Behavioural analysis of a nociceptive event in fish: Comparisons between three species demonstrate specific responses. Applied Animal Behaviour Science, 114, 248-259. 14. Temperton, B, Field, D, Oliver, A, Tiwari, B, Muhling, M, Joint, I, Gilbert, JA (2009) Bias in assessments of marine microbial biodiversity in fosmid libraries as evaluated by pyrosequencing. ISME Journal, 3, 792-796. 15. Veltsos P, Keller I, Nichols RA (2009) Geographically localised bursts of ribosomal DNA mobility in the grasshopper Podisma pedestris. Heredity 103, 54-61. (10.1038/hdy.2009.32) 16. Weynberg KD, Allen MJ, Ashelford K, Scanlan DJ, Wilson WH (2009) From small hosts come big viruses: the complete genome of a second Ostreococcus tauri virus, OtV-1. Environmental Microbiology, 11, 2821-2839. 17. Williams DR, Li W, Hughes MA, Gonzalez SF, Vernon C, Vidal MC, Jeney ZJ, Jeney G, Dixon P, McAndrew B, Bartfai R, Orban L, Trudeau V, Rogers J, Matthews L, Fraser EJ, Gracey AY, Cossins AR (2009) Genomic resources and microarrays for the common carp Cyprinus carpio L. Journal of Fish Biology, 72, 2095–2117. 18. Zhang D, Xiong H, Mennigen JA, Popesku JT, Marlatt VL, Martyniuk CJ, Crump K, Cossins AR, Xia X, Trudeau VL (2009) Defining global neuroendocrine gene expression patterns associated with reproductive seasonality in fish. PLoS One, 4, e5816.
[NBAF-S] 37 1. Ahmed S, Hart T, Dawson DA, Horsburgh GJ, Trathan PN, Rogers AD (2009) Isolation and characterization of macaroni penguin Eudyptes chrysolophus microsatellite loci and their utility in other penguin species. Molecular Ecology Resources, 9, 1530-1535. 2. Ahmed S, Compton SG, Butlin RK, Gilmartin PM (2009) Wind-borne insects mediate directional pollen transfer between desert fig trees 160 kilometers apart. PNAS, 106, 20342-20347. 3. Bataille A, Cunningham AA, Virna Cedeñod Leandro Patiño, Constantinou A, Kramer LD, Goodman SJ (2009) Natural colonisation and adaptation of a mosquito species in Galápagos: implications for disease threats to endemic wildlife. PNAS, 106, 10230-10235. 4. Bataille A, Horsburgh GJ, Dawson DA, Cunningham AA, Goodman SJ (2009) Microsatellite markers characterized in the mosquito Aedes taeniorhynchus (Diptera, Culicidae), a disease vector and major pest on the American coast and the Galápagos Islands. Infection, Genetics and Evolution, 9, 971-975. 5. Bataille A, Cunningham AA, Cedeño V, Cruz M, Eastwood G, Fonseca DM, Causton CE, Azuero R, Loayza J, Martinez JD, Goodman SJ (2009) Evidence for regular ongoing introductions of mosquito disease vectors into the Galápagos Islands. Proceedings of the Royal Society B, 276, 3769-3775. 6. Brekke P, Dawson DA, Horsburgh GJ, Ewen J (2009) Characterization of microsatellite loci in the hihi (Stitchbird) Notiomystis cincta (Notiomystidae (Meliphagidae), AVES) Molecular Ecology Resources, 9, 1255-1258. 7. Bretman A, Newcombe D, Tregenza T (2009) Promiscuous females avoid inbreeding by controlling sperm storage. Molecular Ecology, 18, 3340-3345. 8. Craul M, Chikhi L, Olivieri G, Rabesandratana A, Zimmermann E and Radespiel U (2009) Influence of forest fragmentation on an endangered large-bodied lemur in northwestern Madagascar - Implications for conservation. Biological Conservation, 142, 2862-2871.
70 9. Craul M, Dawson DA, Radespiel U, Zimmermann E, Bruford MW (2009) Isolation of sixteen autosomal loci and a sex-linked polymorphic microsatellite locus from the Milne-Edwards’ sportive lemur. Molecular Ecology Resources, 9, 333–335. 10. *Evans KL, Gaston KJ, Frantz AC, Simeoni M, Sharp SP, McGowan A, Dawson DA, Walasz K, Partecke J, Burke T, Hatchwell BJ (2009) Independent colonisation of multiple urban centres by a formerly forest bird species. Proceedings of the Royal Society of London B, 276, 2403-2410. 11. *Evans KL, Gaston KJ, Sharp SP, McGowan A, Simeoni M, Hatchwell BJ (2009) Effects of urbanisation on disease prevalence and age structure in blackbird Turdus merula populations. Oikos, 118, 774-782. 12. Ewen JG, Thorogood R, Brekke P, Cassey P, Karadas F, Armstrong DP (2009) Maternally invested carotenoids compensate costly ectoparasitism in the hihi. PNAS, 106, 12798–12802. 13. Flanders J, Jones G, Benda P, Dietx C, Zhang S, Li G, Sharifi M, Rossiter SJ (2009) Phylogeography of the greater horseshoe bat, Rhinolophus ferrumequinum: contrasting results from mitochondrial and microsatellite data. Molecular Ecology, 18, 306-318. 14. *Frantz AC, Proess R, Burke T, Schley L (2009) A genetic assessment of the two remnant populations of the natterjack toad (Bufo calamita) in Luxembourg. Herpetological Journal, 19, 53- 59. 15. *Frantz AC, Cellina S, Krier A, Schley L, Burke T (2009) Using spatial Bayesian methods to determine the genetic structure of a continuously distributed population: clusters or isolation by distance? Journal of Applied Ecology, 46, 493-505. 16. Gillingham MAF, Richardson DS, HYPERLINK "http://www.zoologi.su.se/about/staff/person.php?suuid=hlvl" \t "_blank" Lovlie H, Moynihan A, Worley K, Pizzari T (2009) Cryptic preference for MHC-dissimilar females inmale red junglefowl, Gallus gallus. Proceedings of the Royal Society of London, B 276, 1083-1092. 17. Griffiths AM, Bright D, Stevens JR (2009) Comparison of patterns of genetic variability in wild and supportively bred stocks of brown trout, Salmo trutta. Fisheries Management and Ecology, 16, 514– 519. 18. Griffiths AM, Koizumi I, Bright D, Stevens JR (2009) A case of isolation by distance and short-term temporal stability of population structure in brown trout (Salmo trutta) within the River Dart, southwest England. Evolutionary Applications, 2, 537–554. 19. Groombridge JJ, Dawson DA, Burke T, Prys-Jones R, Brooke M de L, Shah N (2009) Evaluating the demographic history of the Seychelles kestrel (Falco araea): Genetic evidence for recovery from a population bottleneck following minimal conservation management. Biological Conservation, 142, 2250-2257. 20. *Guillot G, Leblois R, Coulon A, Frantz AC (2009) Statistical methods in spatial genetics. Molecular Ecology, 18, 4734-4756. 21. Hewitt S, Macdonald DW, Dugdale HL (2009) Context-dependent linear dominance hierarchies in social groups of European badgers, Meles meles. Animal Behaviour, 77, 161–169. 22. *Johanet A, Picard D, Garner TWJ, Dawson DA, Morales-Hojas R, Jehle R, Peltier D, Lemaire C (2009) Characterization of microsatellite loci in two closely related Lissotriton newt species. Conservation Genetics, 18, 54-63. 23. Johnson JA, Tingay RE, Culver M, Hailer F, Clarke ML, Mindell DP (2009) Long-term survival despite low genetic diversity in the critically endangered Madagascar fish-eagle. Molecular Ecology, 18, 54-63. 24. *Klein A, Horsburgh GJ, Küpper C, Major A, Lee PLM, Hoffmann G, Mátics R, Dawson DA (2009) Microsatellite markers characterized in the barn owl (Tyto alba) and of high utility in other owls (Strigiformes: AVES). Molecular Ecology Resources, 9, 1512-1519. 25. Kosztolányi A, Javed S, Küpper C, Cuthill IC, Al Shamsi A, Székely T (2009) Breeding ecology of Kentish Plover Charadrius alexandrinus in an extremely hot environment. Bird Study, 56, 244-252. 26. Küpper C, Augustin J, Kosztolányi A, Burke T, Figuerola J, Székely T (2009) Kentish versus snowy plover: Phenotypic and genetic analyses of Charadrius alexandrinus reveal divergence of Eurasian and American subspecies. Auk, 126, 839-852. 27. *Lee JW, Jang BS, Dawson DA, Burke T, Hatchwell BJ (2009) Fine-scale genetic structure and its consequence in breeding aggregations of a passerine bird. Molecular Ecology, 18, 2728–2739. 28. *Lee J-W, Kim M-S, Burke T, Hatchwell BJ (2009) Extrapair paternity in a flock-living passerine, the vinous-throated parrotbill Paradoxornis webbianus. Journal of Avian Biology, 40, 469-474.
71 29. Lucas ER, Horsburgh GJ, Dawson DA, Field J (2009) Characterization of microsatellite loci isolated from the wasp Microstigmus nigrophthalmus (Hymenoptera). Molecular Ecology Resources, 9, 1492-1497. 30. *Martin-Galvez D, Dawson DA, Horburgh GJ, Burke T (2009) Isolation, characterization and chromosome locations of polymorphic black-billed magpie Pica pica (Corvidae, AVES) microsatellite loci. Molecular Ecology Resources, 9, 1506-1512. 31. *Meares K, Dawson DA, Horsburgh GJ, Glenn TC, Jones KL, Braun MJ, Perrin MR, Taylor TD (2009) Microsatellite loci characterized in three African crane species (Gruidae, AVES). Molecular Ecology Resources, 9, 308-311. 32. Phillips RA, Bearhop S, Mcgill RAR, Dawson DA (2009) Stable isotopes reveal individual variation in migration strategies and habitat preferences in a suite of seabirds during the nonbreeding period. Oecologia, 160. 795–806. 33. Raisin C, Dawson DA, Greenwood AG, Jones CG, Groombridge J (2009) Characterization of Mauritius parakeet (Psittacula eques) microsatellite loci and their cross-utility in other parrots (Psittacidae, AVES). Molecular Ecology Resources, 9, 1231-1235. 34. Silvertown J, Biss PM, Freeland J (2009) Community genetics: resource addition has opposing effects on genetic and species diversity in a 150-year experiment. Ecology Letters, 12, 165-170. 35. Simeoni M, Dawson DA, Gentle L, Coiffait L, Wolff K, Evans KL, Gaston K, Hatchwell BJ (2009) Characterization of 38 microsatellite loci in the blackbird Turdus merula (Turdidae, AVES). Molecular Ecology Resources, 9, 1520-1526. 36. Thaxter CB, Daunt F, Hamer KC, Watanuki Y, Harris MP, Gremillet D, Peters G, Wanless S (2009) Sex-specific food provisioning in a monomorphic seabird: nest defence, foraging efficiency or parental effort? Journal of Avian Biology, 40, 75-84. 37. Wright JA, Barker RJ, Schofield MR, Frantz AC, Byrom AE, Gleeson DM (2009) Incorporating genotype uncertainty into mark-recapture-type models for estimating abundance using DNA samples. Biometrics, 65, 833-840.
THESES (20) 1. Bataille A. (2009) PhD Thesis (University of Leeds/ Institute of Zoology of London). Population genetics and disease ecology of mosquito spp. in Galapagos. [NBAF-S] 2. Bontell EI. (2009) PhD Thesis (University of Leeds) Genetic and Biological characterisation of Toxoplasma gondii in Uganda. [NBAF-E/L] 3. Brekke P. (2009) PhD Thesis (Imperial College, University of London) Conservation genetics of an Island endemic bird, the hihi (Notiomystis cincta). [NBAF-S] 4. Craul M. (2009) PhD Thesis (University of Cardiff / Leibniz Universitaet Hanover, Germany) Molecular phylogenetics and conservation genetics of sportive lemurs (Lepilemur edwardsi) in northwestern Madagascar. [NBAF-S] 5. Ferguson L. (2009) PhD Thesis (University of Cambridge) The genetic basis of wing patterning in the mimetic butterfly, Heliconius melpomene. [NBAF-L280] 6. Hlaing T. (2009) PhD Thesis (University of Manchester) Genetic population structure and gene flow in Aedes aegypti mosquitoes in Southeast Asia. [NBAF-S124] 7. Hoebe PN. (2009) PhD Thesis (University of Glasgow) Evolutionary dynamics of mating systems in populations of North American Arabidopsis lyrata. [NBAF-E] 8. Hutchings K. (2009) PhD Thesis (University of East Anglia) Gastrointestinal parasites, MHC genes and fitness in a wild avian population. [NBAF-S115] 9. *Klein A. (2009) PhD Thesis (The Barn Owl Foundation, Hungary) The possible effects of extreme winters on the barn owl (Tyto alba Scop., 1769) population in Hungary: survival, physiology and population genetics. [NBAF-S] 10. Lucas ER. (2009) PhD Thesis (University of Sussex) Social structure and evolution of the apoid wasp Microstigmus nigrophthalmus. [NBAF-S] 11. Mitchell TJ. (2009) PhD Thesis (University of Plymouth) Population genetics of Gracilariopsis longissima in South West Britain. [NBAF-S] 12. Napper P. (2009) PhD Thesis (Lancaster University) Ecological functional genomics: the genetic basis of phenotypic plasticity in Daphnia pulex. [NBAF-L] 13. Qui Y. (2009) PhD Thesis (University of Leeds). The Distribution and Diversity of Parasites in Ancient Species Flocks: Baikalian Amphipods & Microsporidian Parasites. [NBAF-E]
72 14. *Riou S. (2009) PhD thesis (University of Leeds) Regulation of parental effort and chick growth in Manx shearwaters: behaviour, physiology and environmental variability. [NBAF-S] 15. Shorrock KA. (2009) PhD Thesis (Newcastle University) Physiological and molecular aspects of drought resistance in Clusia. [NBAF-E239] 16. Sinfield CA. (2009) PhD Thesis (University of Leeds) Dynamics of the Littorina saxatilis hybrid zone. [NBAF-S] 17. Stevens K. (2009) MRes Marine Biology Thesis (University of Plymouth) A genomic approach to characterise the lysogenic nature of Phaeoviruses. [NBAF-L] 18. Thaxter C. (2009) PhD Thesis (University of Leeds) Breeding and foraging ecology of guillemots and razorbills: a comparison of two pursuit-diving seabirds. [NBAF-S] 19. Weynberg K (2009) PhD Thesis (Plymouth Marine Laboratory / University of Warwick) Isolation and characterisation of marine viruses that infect nano- and picophytoplankton. [NBAF-L] 20. Wilkes TE (2009) University of Liverpool Biological and Genomic Studies of Arsenophonus, son- killer of Nasonia vitripennis. [NBAF-L]
OTHER (5) 1. Craft JA, Gilbert JA, Temperton B, Dempsey KE, Ashelford K, Tiwari B, Hutchinson T, Chipman JK (2009) Pyrosequencing of Mytilus galloprovincialis cDNAs: tissue- specific expression patterns. BBSRC Systems Biology Showcase, University of Glasgow 14 October, Conference proceedings. [NBAF-L] 2. Kalujnaia S, Cramb G (2009) Myo-Inositol monophosphatase, inositol production and osmoregulation in the euryhaline European eel, Anguilla Anguilla. FASEB journal, 23, 629.6 [Refereed but non ISI – NBAF-E]. 3. Kapralov MV, Stift M and Filatov DA (2009) Evolution of genome size in Hawaiian endemic genus Schiedea. Tropical Plant Biology, 2, 77-83. [Refereed but non ISI – NBAF-L]. 4. Marsden, C (2009) ‘Hair of the dog.’ Planet Earth, May 2009. [NBAF-E] 5. Viant, M (2009) ‘The fat of the land’. Planet Earth, Spring 2009. [NBAF-B]
73 [2008] 24E + 15L + 21S + 15GS + 1Ch = 76
[NBAF-E] 24
1. Achilles-Day UEM, Pröschold T, Day JG (2008) Phylogenetic position of the freshwater ciliate Euplotes daidaleos within the family of Euplotidae, obtained from small subunit rDNA gene sequence. Denisia, 23, 411-416. 2. Brown MM, Williams TD, Chipman JK, Katsiadaki I, Sanders M, Craft JA (2008) Construction of subtracted EST and normalised cDNA libraries from liver of chemical-exposed three-spined stickleback (Gasterosteus aculeatus) containing pollutant responsive genes as a resource for transcriptome analysis. Marine Environmental Research, 66, 127-130. 3. Diab AM, Williams TD, Sabine VS, Chipman JK, George SG (2008) The GENIPOL European flounder Platichthys flesus L. toxicogenomics microarray: application for investigation of the response to furunculosis vaccination. Journal of Fish Biology, 72, 2154-2169. 4. Falciani F, Diab AM, Sabine VS, Williams TD, Ortega F, George SG, Chipman JK (2008) Hepatic transcriptomic profiles of European flounder (Platichthys flesus) from field sites and computational approaches to predict site from stress gene responses following exposure to model toxicants. Aquatic Toxicology, 90 92-101. 5. Foged Larsen P, Einar Eg Nielsen, Timothy David Williams and Volker Loeschcke (2008) Intraspecific variation in expression of candidate genes for osmoregulation, heme biosynthesis and stress resistance suggests local adaptation in European flounder (Platichthys flesus) Heredity, 101, 247-259. 6. Ford AT, Sambles C, Kille P (2008) Intersexuality in crustaceans: Genetic, individual and population level effects. Marine Environmental Research, 66, 146-148. 7. Garnier S, Verduijn M, Preuss S, Wolff K, Stone GN (2008) Polymorphic microsatellite loci and interspecific cross-amplification in the parasitoid wasps Megastigmus stigmatizans and Megastigmus dorsalis. Molecular Ecology Resources, 8, 421-424. 8. Geoghegan F, Katsiadaki I, Williams TD, Chipman JK (2008) A cDNA Microarray for the three spined stickleback, Gasterosteus aculeatus L., and analysis of the interactive effects of oestradiol and dibenzanthracene exposures. Journal of Fish Biology, 72, 2133-2153. 9. Gilbert JA, Mühling M, Joint I (2008) A rare SAR11 fosmid clone confirming genetic variability in the ‘Candidatus Pelagibacter ubique’ genome. ISME Journal, 2, 790-793. 10. Gotz S, Garcia-Gomez JM, Terol J, Williams TD, Nagaraj SH, Nueda, Montserrat Robles MJ, Talon M, Dopazo J, Conesa A (2008) High throughput functional annotation and data mining with the Blast2GO suite. Nucleic Acids Research, 36 3420-35. 11. Hegarty MJ, Barker GL, Brennan AC, Edwards KJ, Abbott RJ, Hiscock SJ (2008) Changes to gene expression associated with hybrid speciation in plants: further insights from transcriptomic studies in Senecio. Philosophical Transactions of the Royal Society of London B, 363, 3055-3069. 12. Larsen PF, Nielsen EE, Williams TD & Loeschcke V (2008) Intraspecific variation in expression of candidate genes for osmoregulation, heme biosynthesis and stress resistance suggests local adaptation in European flounder (Platichthys flesus). Heredity, 101, 247–259. 13. Mable BK (2008) Genetic consequences of inbreeding: case studies in the Brassicaceae. Genetics Research, 90, 47-60. 14. Nakada T, Nozaki H & Pröschold T (2008) Molecular phylogeny, ultrastructure, and taxonomic revision of Chlorogonium (Chlorophyta): Emendation of Chlorogonium and description of Gungnir gen. nov. and Rusalka gen. nov. Journal of Phycology, 44, 751-760. 15. Neufeld JD, Chen Y, Dumont MG, Murrell JC (2008) Marine methylotrophs revealed by stable- isotope probing, multiple displacement amplification and metagenomics. Environmental Microbiology, 10, 1526–1535. 16. Owen J, Hedley AB, Svendsen C, Wren J, Jonker MM, Hankard PK, Lister LJ, Sturzenbaum SR, Morgan AJ, Spurgeon DJ, Blaxter M, Kille P (2008) Transcriptome profiling of developmental and xenobiotic responses in a keystone soil animal, the oligochaete annelid Lumbricus rubellus. BMC Genomics, 9, 266. 17. Papanicolaou A, Gebauer-Jung S, Blaxter ML, Owen-McMillan W, Jiggins CD (2008) ButterflyBase: a platform for lepidopteran genomics. Nucleic Acids Research, 36, 582-587 [T]
74 18. Quicke DLJ, Sharkey MJ, Laurenne NM & Dowling A (2008) A preliminary molecular phylogeny of the Sigalphinae (Hymenoptera: Braconidae), including Pselaphanus Szépligeti, based on 28S rDNA, with descriptions of new Afrotropical and Madagascan Minanga and Malasigalphus species. Journal of Natural History, 42, 2703-2719. 19. Schmid R, Blaxter ML (2008) annot8r: rapid assignment of GO, EC and KEGG annotations. BMC Bioinformatics, 9 180. 20. Stone GN, Atkinson RJ, Rokas A, Nieves-Aldrey J-L, Melika G, Ács Z, Csóka G, Hayward A, Bailey R, Buckee C, McVean GAT (2008) Evidence for widespread cryptic sexual generations in apparently asexual Andricus gallwasps. Molecular Ecology, 17, 652-665. 21. Svendsen C, Owen J, Kille P, Wren J, Jonker MJ, Hedley BA, Morgan AJ, Blaxter ML, Sturzenbaum SR, Hankard PK, Lister LJ & Spurgeon DJ (2008) Comparative transcripomoic responses to chronic cadmium, fluoranthene and atrazine exposure in Lumbricus rubellus. Environmental Science and Technology, 42, 4208–4214. 22. Williams TD, Diab A, Ortega F, Sabine VS, Godfrey RE, Falciani F, Chipman JK, George SG (2008) Transcriptomic responses of European flounder to model toxicants. Aquatic Toxicology, 90 83-91. 23. Yang G, Kille P, Ford AT (2008) Infertility in a marine crustacean: Have we been ignoring pollution impacts on male invertebrates? Aquatic Toxicology, 88, 81-87. 24. Zaldivar-Riveron A, Shaw MR, Saez AG, Mori M, Belokobylskij SA, Shaw SR, Quicke DLJ (2008) Evolution of the parasitic wasp subfamily Rogadinae (Braconidae): phylogeny and evolution of lepidopteran host ranges and mummy characteristics. BMC Evolutionary Biology, 8, 329. [Featured Article].
[NBAF-L] 15
1. Allen MJ, Wilson WH (2008). Aquatic virus diversity accessed through omic techniques: A route map to function. Current Opinion in Microbiology, 11, 226-232. 2. Allen MJ, Cossins AR, Hall N, Field D (2008) Use of Arrays with Non-Model Organisms: A UK Perspective. In: Oligonucleotide Array Sequence Analysis. Eds. Martina K. Moretti and Lorenzo J. Rizzo. 3. Brownridge P, Vieira de Mello L, Peters L, McLean LAC, Cossins A, Whitfield P, Young I (2008) Regional variation in parvalbumin isoform expression correlates with muscle performance in Common Carp (Cyprinus carpio). Journal of Experimental Biology, 212, 184-193. 4. Cossins A, Berenbrink M. (2008) Physiology: Myoglobin's new clothes. Nature, 454, 416-7 5. Darby A, Hall N (2008) Fast forward genetics. Nature Biotechnology, 26, 1248-49. 6. Evans H, Mello LV, Fang Y, Wit E, Thompson FJ, Viney ME, Paterson S (2008) Microarray analysis of gender- and parasite-specific gene transcription in Strongyloides ratti. International Journal for Parasitology, 8, 1329-1341. 7. Evans H, De Tomaso T, Quail M, Rogers J, Gracey A, Cossins A, Berenbrink M (2008) Ancient and modern duplication events and the evolution of stearoyl-CoA desaturases in teleost fishes. Physiol Genomics, 35, 18-29. 8. Gilbert JA, Field D, Huang Y, Edwards R, Li W, et al. (2008) Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities. PLoS ONE, 3, e3042. 9. Gilbert JA, Mühling M, Joint I (2008) A rare SAR11 fosmid clone confirming genetic variability in the ‘Candidatus Pelagibacter ubique’ genome. ISME Journal, 2, 790-793. 10. Mable BK (2008) Genetic causes and consequences of the breakdown of self-incompatibility: case studies in the Brassicaceae. Genetics Research, 90, 47-60. 11. Mennigen JA, Martyniuk CJ, Crump K, Xiong H, Zhao E, Popesku J, Anisman H, Cossins AR, Xia X, Trudeau VL (2008) Effects of fluoxetine on the reproductive axis of female goldfish (Carassius auratus). Physiol Genomics, 35, 273-82. 12. Olohan LA, Li W, Wolf T, Jarme HO, Gracey AY, Cossins AR (2008) Detection of anoxia- responsive genes in cultured cells of the rainbow trout, Oncorhynchus mykiss, using an optimised, genome-wide oligoarray. Journal of Fish Biology, 72, 2179-86.
75 13. Popesku JT, Martyniuk CJ, Mennigen J, Xiong H, Zhang D, Xia X, Cossins AR, Trudeau VL (2008) The goldfish (Carassius auratus) as a model for neuroendocrine signaling. Mol Cell Endocrinology, 293, 43-56. 14. Reilly SC, Quinn JP, Cossins AR, Sneddon LU (2008) Novel candidate genes identified in the brain during nociception in common carp (Cyprinus carpio) and rainbow trout (Oncorhynchus mykiss). Neuroscience Letters, 437, 135-138. 15. Williams D, Li W, Hughes M, Gonzalez S, Vernon C, Vidall M, Jeney Z, Jeney G, Dixon P, McAndrew B et al (2008) Genomic resources and microarrays for the common carp Cyprinus carpio L. Journal of Fish Biology, 72, 2095-2117.
[NBAF-S] 21
1. Anderson SJE, Conrad KF, Gillman MP, Woiwod IP, Freeland JR (2008) Phenotypic changes and reduced genetic diversity have accompanied the rapid decline of the garden tiger moth (Arctia caja) in the UK. Ecological Entomology. 33, 638-645. 2. Bretman A, Dawson DA, Horsburgh GJ, Tregenza T (2008) New microsatellite loci isolated from the field cricket Gryllus bimaculatus characterized in two cricket species, Gryllus bimaculatus and Gryllus campestris. Molecular Ecology Resources, 8, 1015-1019. 3. Brownlow RJ, Dawson DA, Horsburgh GJ, Bell JJ, Fish JD (2008) A method for genotype validation and primer assessment in heterozygote-deficient species, as demonstrated in the prosobranch mollusc Hydrobia ulvae. BMC Genetics, 9, 55. 4. Burri R, Antoniazza S, Siverio F, Klein Á, Roulin A, Fumagalli L (2008) Isolation and characterization of 21 microsatellite markers in the barn owl (Tyto alba). Molecular Ecology Resources, 8, 977-979. 5. Chen S, Jones G, Rossiter SJ (2008) Sex-biased gene flow and colonisation in the Formosan lesser horseshoe bat: inference from nuclear and mitochondrial markers. Journal of Zoology, 274, 207- 215. 6. Dawnay N, Ogden R, Thorpe RS, Pope LC, Dawson DA, McEwing R (2008) A forensic STR profiling system for the Eurasian badger: A framework for developing profiling systems for wildlife species. International Journal of Legal Medicine. Forensic Science International: Genetics, 2, 47-53. 7. *Douaud M, Fève K, Gerus M, Fillon V, Bardes S, Gourichon D, Dawson DA, Hanotte O, Burke T, Vignoles F, Morisson M, Tixier-Boichard M, Vignal A, Pitel F (2008) Addition of the microchromosome GGA25 to the chicken genome sequence assembly through radiation hybrid and genetic mapping. BMC Genomics, 9, 129. 8. Dugdale HL, Macdonald DW, Pope LC, Johnson PJ, Burke T (2008). Reproductive skew and relatedness in social groups of European badgers Meles meles. Molecular Ecology, 17, 1815– 1827. 9. *Frantz AC, Hamann J-L, Kleen F (2008) Fine-scale genetic structure of red deer (Cervus elaphus) in a French temperate forest. European Journal of Wildlife Research, 54, 44-52. 10. Huck M, Frantz AC, Dawson DA, Burke T, Roper (2008) Low genetic variability, female biased dispersal and high movement rates in an urban population of Eurasian badgers (Meles meles). Journal of Animal Ecology, 77, 905–915. 11. Küpper C, Burke T, Székely T, Dawson DA. (2008) Enhanced cross-species utility of conserved microsatellite markers in shorebirds and allies. BMC Genomics, 9, 1015-1019. 12. *Meares K, Dawson DA, Horsburgh GJ, Perrin MR, Burke T, Taylor TD (2008) Characterisation of 14 blue crane Grus paradisea (Gruidae, AVES) microsatellite loci for use in detecting illegal trade. Conservation Genetics, 9, 1363-1367. 13. Phillimore AB, Owens IPF, Black RA, Chittock J, Burke T, Clegg SM. (2008) Complex patterns of divergence in an island bird and the consequences for delimiting conservation units. Molecular Ecology, 17, 2839-2853 14. Price TAR and Wedell N (2008) Selfish genetic elements and sexual selection: their impact on male fertility. Genetica, 132, 295-307. 15. Price TAR, Bretman AJ, Avent T, Snook RR, Hurst GDD, Wedell N (2008) Sex ratio distorter reduces sperm competitive success in an insect. Evolution, 62, 644-1652.
76 16. Price TAR, Hodgson DJ, Lewis Z, Hurst GDD, Wedell N (2008) Selfish genetic elements promote polyandry in a fly. Science, 322, 1241-1243. 17. Sharp SP, Simeoni M, Hatchwell BJ (2008) Dispersal of sibling coalitions promotes helping among immigrants in a cooperatively breeding bird. Proceedings of the Royal Society of London B, 275, 2125-2130. 18. Sharp SP, Hadfield J, Baker MB, Simeoni M, Hatchwell BJ (2008) Natal dispersal and recruitment in a social bird. Oikos, 117, 1371-1379. 19. Silvertown J, Biss PM, Freeland J (2008) Community genetics: resource addition has opposing effects on genetic and species diversity in a 150-year experiment. Ecology Letters, 11, 1-6. 20. Struebig M, Horsburgh GJ, Pandhal J, Triggs A, Zubaid A, Kingston T, Dawson DA, Rossiter S (2008) Isolation and characterisation of microsatellite loci in the papillose woolly bat, Kerivoula papillosa (Chiroptera: Vespertilionidae). Conservation Genetics, 9, 751-756. 21. Worley K, Gillingham M, Jensen P, Kennedy LP, Pizzari T, Kaufman J, Richardson DS (2008) Single locus typing of MHC class I and class II B loci in a population of red jungle fowl. Immunogenetics 60, 233-247.
CHAP / BOOK 1
Creer S (2008) New technologies. In: Manual for the molecular barcoding of deep-sea nematodes. Eds. Lambshead P.J.D. and Packer M. International Seabed Authority, United Nations. (NBAF-L)
THESES 15 1. Andre J (2008) PhD Thesis (University of Reading – NBAF-E) Earthworm adaptations to metals: inorganic speciation, biochemical fingerprinting and molecular genetics. 2. Angell R (2008) PhD Thesis (University of Leeds) Population structure and mating patterns in Daubenton's bat. 3. Biss PM (2008) PhD Thesis (Open University) Molecular ecology of Anthoxanthum odoratum in the Park Grass Experiment. 4. Brownlow R (2008) PhD Thesis (University of Wales, Aberystwyth). Are benthic estuarine populations self-recruiting? 5. Eyre CA (2008) PhD Thesis (Cardiff University–NBAF-E) Interspecific interactions between saprotrophic basidiomycetes: effect on volatile production and gene expression of mycelia. 6. Holt B (2008) PhD Thesis (University of East Anglia) Evolution and Ecology of a Species Complex: Investigating the Origin and Maintenance of Colour Polymorphism in the Genus Hypoplectrus. 7. Küpper C (2008) PhD Thesis (University of Bath) Molecular ecology of the Kentish plover Charadrius alexandrinus. 8. *Lee JW (2008) PhD Thesis (University of Sheffield) Behaviour, genetics and social organisation of the vinous-throated parrotbill Paradoxornis webbianus. 9. Lord A (2008) PhD Thesis (Imperial College London) Environmental Components of Reproductive Success in the Blue tit, Parus caeruleus. 10. Piyapong C (2008) PhD Thesis (University of Leeds) Factors underlying shoal composition in the Trinidian guppy (Poecilia reticulata) the effects of predation and sex differences. 11. Sambles C. (2008) PhD Thesis (Cardiff University – NBAF-E) Endocrine disruption in aquatic invertebrates. 12. Sawle A (2008) PhD Thesis (University of Liverpool – NBAF-L) Transcriptomic expression profiles as indicators of ecotoxicological effect in the zebrafish (Danio rerio) embryos. 13. Struebig M (2008) PhD Thesis (Queen Mary, University of London) Impacts of forest fragmentation on the genetic and community structure of tropical bats. 14. Veltsos P (2008) PhD Thesis (Queen Mary University of London) The involvement of a sex chromosome fusion and rDNA diversity in the grasshopper Podisma pedestris hybrid zone. (NBAF-L)
77 15. *Woodward BK (2008) PhD Thesis (University of Sheffield) The effect of ecology, demography and migration on the prevalence of cooperative breeding in the long-tailed tit.
OTHER (NON ISI) 3
[NBAF-S] 1. Dugdale HL (2008) Genetic analyses of badger populations. In: Macdonald DW & Burnham D. The State of Britain's Mammals 2008. Mammals Trust UK, London. 2. Dugdale HL (2008) The private lives of badgers. Mammals UK. Summer 2008: 10–13. 3. Paterson, S (2008) Discovery of genes for roundworm disease. Natural Environment Research Council Annual Review 2007-2008, NERC, August 2008, pp 14-15.
78 [2007]
[NBAF-E] 11
1. Amato A, Kooistra WHCF, Ghiron JHL, Mann DG, Pröschold T & Montresor M (2007) Reproductive isolation among sympatric cryptic species in marine diatoms. Protist 158(2), 193- 207 2. Belokobylskij SA, Zaldivar-Riveron A, Leon-Regagnon V & Quicke DLJ. (2007) A new genus of Lysitermini (Hymenoptera: Braconidae: Lysiterinae) from Madagascar and its taxonomic placement based on 28S rDNA sequence data. Zootaxa 1461 25-37. [T] 3. Cohen R, Chalifa-Caspi V, Williams TD, Auslander M, George SG, Chipman JK, Tom M (2007) Estimating the efficiency of fish cross-species cDNA microarray hybridization (2007) Marine. Biotechnology 9 491-499. [M] 4. Frost AJ, Ashley PJ, Winrow-Giffen A & Sneddon LU (2007) Plasticity in animal personality traits: does prior experience alter the degree of boldness? Proceedings Royal Society of London B 274 333-339. [T] 5. Herrera A, Cockell CS, Self S, Blaxter ML, Reitner J, Arp G, Drose W & Tindle AG (2007). Bacterial colonization and weathering of terrestrial obsidian in Iceland. Geomicrobiology 25 25- 37. 6. Jones M, Gantenbein B, Fet V & Blaxter M (2007) The effect of model choice on phylogenetic inference using mitochondrial sequence data: Lessons from the scorpions. Molecular Phylogenetics and Evolution 43 583-595. [T] 7. Larsen PF Nielsen EE, Williams TD, Hemmer-Hansen J, Bekkevold D, Chipman K, Kruhøffer M, Grønkjær P, George SG, Andersen LD, Loeschcke V (2007) Adaptive differences in gene expression in European flounder (Platichthys flesus) Molecular Ecology 16 4674-4683. [M] 8. Neufeld JD, Schäfer H, Boden R, Murrell JC. (2007) Stable isotope probing of the marine environment implicates Methylophaga and uncultured Gammaproteobacteria in the consumption of methanol and methylamine. ISME J. 1 480-491. [M] 9. Quicke DLJ, Laurenne NM, Fitton MG & Broad GR (2007) Towards a thousand sequence ichneumonid wasp molecular phylogeny (Insecta: Hymenoptera: Ichneumonidae) based on the 28S rDNA D2-D3 region. Journal of Insect Science 7 17-19. [T] 10. Williams TD, Diab AM, George SG, Sabine V, Chipman JK (2007) Gene expression responses of European flounder (Platichthys flesus) to 17-b estradiol. Toxicology Letters. 168 236-248. [M] 11. Zaldivar-Riveron A, Belokobylskij SA, León-Regagnon V, Martinez JJ, Briceno R, Quicke DLJ (2007) A single origin of gall association in a group of parasitic wasps with disperate morphologies. Molecular Phylogenetics and Evolution 44 981-999. [T]
[NBAF-L] 9
1. Allen MJ, Martinez-Martinez J, Schroeder DC, Somerfield PJ and Wilson WH (2007) Use of microarrays to assess viral diversity: from genotype to phenotype. Environmental Microbiology 9 971–982. [M] 2. Aveyard J; Mehrabi M, Cossins A (2007) One step visual detection of PCR products with gold nanoparticles and a nucleic acid lateral flow (NALF) device. Chemical Communications 41 4251- 4253. [T] 3. Davis F, Hughes MA, Cossins AR, Higson SPJ(2007) Single gene differentiation by DNA- modified carbon electrodes using an AC impedimetric approach. Analytical Chemistry 79: 3 1153- 1157. [T] 4. Gonzalez SF, Chatziandreou N, Nielsen ME, Li W, Rogers J, Taylor R, Santos Y, Cossins A.(2007) Cutaneous immune responses in the common carp detected using transcript analysis. Molecular Immunology. 44 1664-79. [T]
79 5. Hayward SA, Murray PA, Gracey AY, Cossins AR (2007) Beyond the lipid hypothesis: mechanisms underlying phenotypic plasticity in inducible cold tolerance. Advanced Experimental Medical Biology 594 132-42. [T] 6. Higgins SJ, Mouffouk F, Brown SJ, williams DR, Cossins AR (2007) An electrogenerated polyterthiophene for binding and sensing polyadenosine-functionalised oligonucleotides. Sensors and Actuators B–Chemical 122:1 253-258. [T] 7. Kalujnaia S, McWilliam IS, Zaguinaiko VA, Feilen AL, Nicholson J, Hazon N, Cutler CP, Balment RJ, Cossins AR, Hughes M, Cramb G. (2007) Salinity adaptation and gene profiling analysis in the European eel (Anguilla anguilla) using microarray technology. General Comparative Endocrinology 152 274-80. [M] 8. McLean L, Young IS, Doherty MK (2007) Global cooling: Cold acclimation and the expression of soluble proteins in carp skeletal muscle. Proteomics 7:15 2667-2681. [T] 9. Murray P, Hayward SA, Govan GG, Gracey AY, Cossins AR (2007) An explicit test of the phospholipid saturation hypothesis of acquired cold tolerance in Caenorhabditis elegans. Proceedings National Acadademy of Sciences of the USA 27 5489-94. [T]
[NBAF-S] 15
1. Ahmed S, Dawson D, Compton SG, Gilmartin PM (2007) Characterization of microsatellite loci in the African fig Ficus sycomorus L. (Moraceae). Molecular Ecology Notes 7 1175–1177. [T] 2. Anderson SJ, Gould P, Freeland JR (2007) Repetitive flanking sequences (ReFS): novel molecular markers from microsatellite families. Molecular Ecology Notes, 7 374-376. [T] 3. Dawson DA, Åkesson M, Burke T, Pemberton JM, Slate J, Hansson B (2007) Gene order and recombination in homologous regions of the chicken and a passerine bird. Molecular Biology and Evolution 24 1537-1552. [T] 4. Dugdale HL, Macdonald DW, Pope LC, Burke T. 2007. Polygynandry, extra-group paternity and multiple paternity litters in European badger (Meles meles) social groups. Molecular Ecology 16(24) 5294–5306. [T] 5. *Furmankiewicz J and Altringham JD (2007) Genetic structure in a swarming brown long-eared bat (Plecotus auritus) population: evidence for mating at swarming sites. Conservation Genetics 8 913-923. [T] 6. *Griffith SC, Dawson DA, Jensen H, Ockendon N, Greig C, Neumann K, Burke T (2007) Fourteen polymorphic microsatellite loci characterised in the house sparrow Passer domesticus (AVES: Passeridae). Molecular Ecology Notes, 7, 333-336. [T] 7. *Gunn MR, Hartnup K, Boutin S, Slate J, Coltman DW (2007) A test of the efficacy of whole- genome amplification on DNA obtained from low-yield samples. Molecular Ecology Notes, 7 393-399. [T] 8. Küpper C, Horsburgh GJ, Dawson DA, Székely T, French-Constant R, Burke T (2007) Characterisation of 36 polymorphic microsatellite loci in the Kentish plover (Charadrius alexandrinus) including two sex-linked loci and their amplification in four other Charadrius species. Molecular Ecology Notes, 7, 35-39. [T] 9. Marshall RC, Buchanan KL, Catchpole CK (2007) Song and female choice for extra-pair copulations in the sedge warbler Acrocephalus schoenobaenus. Animal Behaviour 73 629-635. [T] 10. *Meglécz E, Anderson SJ, Bourguet D, Butcher R, Caldas A, Cassel-Lundhagen A, Coeur d'Acier A, Dawson DA, Faure N, Fauvelot C, Franck P, Harper G, Keyghobadi N, Kluetsch C, Muthulakshmi M, Nagaraju J, Patt A, Petenian F, Silvain JF, Wilcock HR (2007) Microsatellite flanking region similarities among different loci within insect species. Insect Molecular Biology, 16, 175-185. [T] 11. Phillips RA, Catry P, Silk JRD, Bearhop S, McGill R, Afanasyev V, Strange IJ (2007) Movements, winter distribution and activity patterns of Falkland and brown skuas: insights from loggers and isotopes. Marine Ecology Progress Series 345, 281-291. [P] 12. Rossiter SJ, Benda P, Dietz C, Zhang S, Jones G (2007) Rangewide phylogeography in the greater horseshoe bat inferred from microsatellites: implications for population history, taxonomy and conservation. Molecular Ecology 16, 4699–4714. [T] 13. Scheppers TLJ, Frantz AC, Schaul M, Engel E, Breyne P, Schley L, Roper TJ (2007) Estimating
80 social group size of Eurasian badgers by genotyping remotely plucked single hairs. Wildlife Biology, 13, 195-207. 14. Simeoni M, Dawson DA, Ross DJ, Châline N, Burke T, Hatchwell BJ (2007) Characterisation of 20 microsatellite loci in the long-tailed tit Aegithalos caudatus (Aegithalidae, AVES). Molecular Ecology Notes, 7 1319-1322. [T] 15. Tingay RE, Dawson DA, Pandhal J, Clarke ML, David V, Culver M (2007) Isolation of 22 new Haliaeetus microsatellite loci and their characterization in the critically endangered Madagascar fish-eagle (Haliaeetus vociferoides) and three other Haliaeetus eagle species. Molecular Ecology Notes 7 711-715. [T]
THESES 12
1. Azadi NA (2007) MSc Thesis (Lancaster University) Microarray analysis of the effect of industrial pollution on stickleback fish using linear mixed effect models. (NBAF-L) 2. Bamford A (2007) PhD Thesis (University of Nottingham) Competition and co-existence among vultures: from individual behaviour to conservation ecology. 3. Berg M (2007) PhD Thesis (University of Groningen) Sexual selection and reproductive strategies in songbirds : territoriality, mate and parental care. 4. Bourke B (2007) PhD Thesis (University of Nottingham). Population genetics of the golden eagle (Aquila chrysaetos) in the British Isles and its phylogeography in Europe. 5. *Coiffait L (2007) PhD Thesis (Newcastle University). Investigating the movements of migratory thrushes Turdus merula and T. iliacus using intrinsic markers and morphology. 6. *Dawson DA (2007) PhD Thesis (University of Sheffield) Genomic analysis of passerine birds using conserved microsatellite loci. 7. Dugdale H (2007) PhD Thesis (University of Oxford). The evolution of social behaviour: the effect of mating system and social structure in the European badger Meles meles. 8. Geoghegan F (2007) PhD Thesis (The University of Birmingham – NBAF-E) Differential gene expression in the three-spined stickleback, Gasterosteus aculeatus, following exposure to mixtures of compounds. 9. Li W (2007) PhD Thesis (University of Liverpool). An integrated suite of informatics tools and resources to support post-genomics investigations. (NBAF-L) 10. Mainwaring MC (2007) PhD thesis (Lancaster University). Evolutionary causes and consequences of hatching asynchrony in nestling birds. 11. Maunder R.J. (2007) PhD Thesis (CEH Lancaster, Lancaster Environment Centre) The effects of endocrine disrupting chemicals on reproductive performance of sticklebacks. (NBAF-L) 12. O´Connor E. (2007) PhD Thesis (University of Liverpool) Population difference in response to hypoxia: Behaviour and physiology of three-spined stickleback, Gasterosteus aculeatus. (NBAF- L)
81 [2006]
[NBAF-E] 8
1. Cutter AD, Wasmuth JD, Blaxter ML (2006) The evolution of biased codon and amino acid usage in nematode genomes. Mol Biol Evol 23 2303-2315. 2. Dalmay T (2006) Short RNAs in environmental adaptation. Proc R Soc Lond B 273 1579-1585. 3. Dalmay T, Edwards DR (2006) MicroRNAs and the hallmarks of cancer. Oncogene 25 6170- 6175. 4. Hegarty MJ, Barker GL, Wilson ID, Abbott RJ, Edwards KJ, Hiscock SJ (2006) Transcriptome shock after interspecific hybridization in Senecio is ameliorated by genome duplication. Curr Biol 16 1652-1659. 5. Ho T, Pallett D, Rusholme R, Dalmay T, Wang H (2006) A simplified method for cloning of short interfering RNAs from Brassica juncea infected with turnip mosaic potyvirus and turnip crinkle carmovirus. J Virol Methods 136 217-223. 6. Jones M. & Blaxter M (2006) TaxMan: A taxonomic database manager. BMC Bioinformatics 7 536-539. [T] 7. Rathjen T, Nicol C, McConkey G, Dalmay T (2006) Analysis of short RNAs in the malaria parasite and its red blood cell host. FEBS Lett 580 5185-5188. 8. Zaldivar-Riveron A, Mori M, Quicke DL (2006) Systematics of the cyclostome subfamilies of braconid parasitic wasps (Hymenoptera: Ichneumonoidea): a simultaneous molecular and morphological Bayesian approach. Mol Phylogenet Evol 38 130-145.
[NBAF-L] 9
1. Allen MJ, Wilson WH (2006) The coccolithovirus microarray: an array of uses. Briefings in Functional Genomics and Proteomics 5 273-9 2. Chipman JK, George SG, Williams TD, Diab AM, Sabine V, Ortega F and Falciani F (2006) A high density flounder (Platichthys flesus) cDNA microarray as a tool in the identification of expression changes in gene sets predictive of exposure to pollutants. Toxicology Letters, 164 Supplement 1, S42 [not referred]. 3. Cossins AR, Fraser EJ Gracey AY (2006) Post-genomic approaches to understanding the mechanisms of environmentally-induced phenotypic plasticity. J. exp. Biol. 209 2328-2336. 4. Fraser J, Mello LV, Fang Y, Brass A, Gracey AY, Cossins AR (2006) Hypoxia-inducible myoglobin expression in non-muscle tissues. Proc. Nat. Acad. Sci. USA 103 2977-2981. 5. Lewis NA, Williams TD, Chipman JK (2006) Functional analysis of a metal response element in the regulatory region of flounder cytochrome P450 1A and implications for environmental monitoring of pollutants. Toxicol Sci 92 387-393. 6. Morrison N, Wood AJ, Hancock D, Shah S, Hakes L, Gray T, Tiwari B, Kille P, Cossins A, Hegarty M, Allen MJ, Wilson WH, Olive P, Last K, Kramer C, Bailhache T, Reeves J, Pallett D, Warne J, Nashar K, Parkinson H, Sansone SA, Rocca-Serra P, Stevens R, Snape J, Brass A, Field D. (2006) Annotation of environmental OMICS data: application to the transcriptomics domain. ‘OMICS 10 172-8. 7. Sheader DL, Williams TD, Lyons BP, Chipman JK (2006) Oxidative stress response of European flounder (Platichthys flesus) to cadmium determined by a custom cDNA microarray. Mar Environ Res 62 33-44. 8. Williams TD, Diab AM, George SG, Godfrey RE, Sabine V, Conesa A, Minchin SD, Watts PC, Chipman JK (2006) Development of the GENIPOL European flounder (Platichthys flesus) microarray and determination of temporal transcriptional responses to cadmium at low dose. Environ Sci Technol 40 6479-6488. 9. Wilson R, Cossins AR, Spiller DG (2006) Encoded microcarriers for high-throughput multiplexed detection. Angewandte Chemie-International Edition 45 6104-6117.
82 [NBAF-S] 12
1. Anderson SJ, Dawson DA, Freeland JR (2006) Isolation and characterisation of highly polymorphic microsatellite loci for the garden tiger moth Arctia caja (Lepidoptera: Arctiidae). Molecular Ecology Notes, 6, 104-106. 2. Bearhop S, Phillips RA, McGill R, Cherel Y, Dawson DA, Croxall JP (2006) Stable isotopes indicate sex-specific and long-term individuals foraging specialisation in diving seabirds. Marine Ecology Progress Series, 311, 157-164. 3. Bourke B, Dawson DA (2006) Fifteen microsatellite loci characterised in the golden eagle Aquila chrysaetos (Accipitridae: Aves). Molecular Ecology Notes, 6, 1047-1050. 4. Chen SF, Rossiter SJ, Faulkes CJ, Jones G (2006) Population genetic structure and demographic history of the endemic Formosan lesser horseshoe bat (Rhinolophus monoceros) Molecular Ecology, 15, 1643–1656. 5. *Dawson DA, Burke T, Hansson B, Pandhal J, Hale MC, Hinten GN, Slate J (2006) A predicted microsatellite map of the passerine genome based on chicken-passerine sequence similarity. Molecular Ecology, 15, 1299-1320. 6. Frantz AC, Fack F, Muller CP, Roper TJ (2006) Faecal DNA typing as a tool for investigating territorial behaviour of badgers (Meles meles). European Journal of Wildlife Research, 52, 138- 141. 7. Frantz AC, Roper TJ (2006) Simulations to assess the performance of different rarefaction methods in estimating population size using small datasets. Conservation Genetics, 7, 315-318. 8. Hamill RM, Noor MAF, Watson TE, Ritchie MG (2006) New microsatellite loci for the European bushcricket Ephippiger ephippiger (Orthoptera: Tettigoniidae). Molecular Ecology Notes, 6, 340- 342. 9. Johnson PCD, Webster LMI, Adam A, Buckland R, Dawson DA, Keller LF (2006) Abundant variation in microsatellites of the parasitic nematode, Trichostrongylus tenuis and linkage to a tandem repeat. Molecular and Biochemical Parasitology, 148, 210-218. 10. Leitner S, Marshall RC, Leisler B, Catchpole CK (2006) Male song quality, egg size and offspring sex in captive canaries, Serinus canaria. Ethology, 112, 554-563. 11. Rivers NM, Butlin RK, Altringham JD (2006) Autumn swarming behaviour of Natterer's bats in the UK: Population size, catchment area and dispersal. Biological Conservation, 127, 215-226. 12. Rossiter SJ, Faulkes CG, Ransome RD, Faulkes CG, Dawson DA, Jones G (2006) Long-term paternity skew and the opportunity for selection in a mammal with reversed sexual size dimorphism. Molecular Ecology, 15, 3035-3043.
THESES
1. Glover AM (2006) PhD Thesis (University of Leeds) The ecology and conservation of cave- roosting bats in the Yorkshire Dales. 2. Goodship N (2006) PhD Thesis (University of Cardiff) Endocrine control of nestling begging behaviour in the pied flycatcher, Ficedula hypoleuca. 3. Griffiths AM (2006) PhD Thesis (University of Exeter) The population structure of brown trout (Salmo salar) on Dartmoor National Park. 4. Phillimore A (2006) PhD Thesis (Imperial College, University of London) The ecological basis of speciation and divergence in birds. 5. Vernon C (2006) PhD Thesis (University of Liverpool) Transcriptomic assessment of gene responses to environmental stress - genetic and comparative approaches.
[2005]
83
[NBAF-E] 3
1. Hegarty MJ, Jones JM, Wilson ID, Barker GL, Coghill JA, Sanchez-Baracaldo P, Liu G, Buggs RJ, Abbott RJ, Edwards KJ, Hiscock SJ (2005) Development of anonymous cDNA microarrays to study changes to the Senecio floral transcriptome during hybrid speciation. Molecular Ecology, 14, 2493-2510. 2. Jones M, Blaxter M (2005) Evolutionary biology: animal roots and shoots. Nature, 434, 1076- 1077. 3. Papanicolaou A, Joron M, McMillan WO, Blaxter ML, Jiggins CD (2005) Genomic tools and cDNA derived markers for butterflies. Molecular Ecology, 14, 2883-2897.
[NBAF-L]
1. Williams D R, Epperson LE, Li WZ, Hughes MA, Taylor R, Rogers J, Martin SL, Cossins AR, Gracey AY (2005) Seasonally hibernating phenotype assessed through transcript screening. Physiological Genomics 24, 12-22.
[NBAF-S] 15
2. Bretman A and Tregenza T (2005) Measuring polyandry in the wild: a case study using promiscuous crickets. Molecular Ecology, 14, 2169-2179. 3. *Carpenter PJ, Pope LC, Greig C, Dawson DA, Rogers LM, Erven K, Wilson GJ, Delahay RJ, Cheeseman CL, Burke T (2005) Mating system of the Eurasian badger, Meles meles, in a high density population. Molecular Ecology, 14, 273-284. 4. Châline N, Martin SJ, Ratnieks FLW (2005) Absence of nepotism towards imprisoned young queens during swarming in the honey bee. Behavioral Ecology, 16, 403-409. 5. Dawson DA, Chittock J, Jehle R, Whitlock A, Nogueira D, Pellat J, Birkhead T, Burke T (2005) Identification of 13 polymorphic loci in the zebra finch Taeniopygia guttata (Passeridae, Aves). Molecular Ecology Notes, 5, 298-301. 6. Dawson DA, Hunter FM, Pandhal J, Buckland R, Parham A, Jones IL, Bradshaw M, Jehle R, Burke T (2005) Assessment of 17 new whiskered auklet (Aethia pygmaea) microsatellite loci in 42 seabirds identifies 5-15 polymorphic markers for each of nine Alcinae species. Molecular Ecology Notes, 5, 289-297. 7. *Gunn MR, Dawson DA, Leviston A, Hartnup K, Davis CS, Strobeck C, Slate J, Coltman DW (2005) Isolation of 18 polymorphic microsatellite loci from the North American red squirrel, Tamiascirus ludsonicus (Sciuridae, Rodentia) and their cross-utility in other species. Molecular Ecology Notes, 5, 650-653. 8. Leech DI, Rowe LV, Hartley IR (2005) Experimental evidence for adjustment of parental investment in relation to brood sex ratio in the blue tit. Animal Behaviour, 72,1301-1307. 9. Pegler KR, Evans L, Stevens JR, Wall R (2005) Morphological and molecular comparison of host- derived populations of parasitic Psoroptes mites. Medical and Veterinary Entomology, 19, 392- 403. 10. Reichard M, Bryja J, Ondra Kova M, Davidova M, Kaniewska P, Smith C (2005) Sexual selection for male dominance reduces opportunities for female mate choice in the European bitterling (Rhodeus sericeus) Molecular Ecology, 14, 1533-1542. 11. Rivers NM, Butlin RK, Altringham JD (2005) Genetics population structure of Natterer's bats explained by mating at swarming sites and philopatry. Molecular Ecology, 14, 4299-4312. 12. Rossiter SJ, Ransome RD, Faulkes CG, Le Comber SL, Jones G (2005) Mate-fidelity and intra- lineage polygyny in greater horseshoe bats. Nature, 437, 408-411. 13. Senior P, Butlin RK, Altringham JD (2005) Sex and segregation in temperate bats. Proceedings of the Royal Society, Series B, 272, 2467-2473.
84 14. *Wenseleers T, Badcock N, Erven K, Tofilski A, Nascimento FS, Hart AG, Burke T, Archer ME, Ratnieks FLW (2005) A test of worker policing theory in an advanced eusocial wasp, Vespula rufa. Evolution, 59, 1306-1314. 15. Wilcock HR, Bruford MW, Hildrew AG, Nichols RA (2005) Recruitment, kin and the spatial genetic structure of a caddisfly Plectrocnemia conspersa in a southern English stream. Freshwater Biology, 50, 1499–1514.
THESES 9
1. Anderson SJE (2005) PhD Thesis (Open University) Metapopulation genetics of the garden tiger moth (Arctia caja). 2. Barnett OE (2005) PhD Thesis (Open University) The role of environmental change in the maintenance of sexual reproduction in a perennial grass species, Festuca rubra. 3. *Barr, I. (2005) PhD Thesis (University of Sheffield) Sexual selection in the blue tit (Parus caeruleus). 4. Green NM (2005) PhD Thesis (University of Leeds) Seasonal patterns in population structure and behaviour of the bat Myotis nattereri. 5. Hunter J.M. (2005) MPhil Thesis, University of Sheffield. Behavioural ecology of Seychelles warblers in regenerating natural woodland on Aride Island. 6. Senior P (2005) PhD Thesis (University of Leeds) Spatial and sexual segregation in Daubenton's bat (Myotis daubentonii) in Wharfedale. 7. Temple HJ (2005) PhD Thesis (University of Cambridge) Ecology, cooperative breeding and conservation of the white-breasted thrasher Ramphocinclus brachyurus. 8. Tingay R (2005) PhD Thesis (University of Nottingham) Historical distribution, contemporary status and cooperative breeding in the Madagascar fish eagle (Haliaeetus vociferoides): Implications for conservation. 9. Webster L (2005) PhD Thesis (University of Glasgow) The effects of gene flow on local adaptation in a natural host-parasite system.
85 [2004] NBAF-S ONLY from this point on. 12
1. Bretman A, Wedell N, Tregenza T (2004) Molecular evidence of post-copulatory inbreeding avoidance in the field cricket Gryllus bimaculatus. Proceedings of the Royal Society of London B, 271, 159-164. 2. Châline N, Ratnieks FLW, Raine NE, Badcock NS, Burke T (2004) Non-lethal sampling of honey bee, Apis mellifera, DNA using wing tips. Apidologie, 35, 311-318. 3. Dawson DA, Rossiter SJ, Jones G, Faulkes CG (2004) Microsatellite loci for the greater horseshoe bat Rhinolophus ferrumequinum (Rhinolophidae, Chiroptera) and their cross-utility in other 17 other bat species. Molecular Ecology Notes, 4, 96-100. 4. Fletcher K & Hamer KC (2004) Offspring sex ratio in the common tern Sterna hirundo: a species with negligible sexual size dimorphism. Ibis, 146, 454-360. 5. Frantz AC, Schaul M, Pope LC, Fack F, Schley L, Muller CP, Roper TJ (2004) Estimating population size by genotyping remotely plucked hair: the Eurasian badger. Journal of Applied Ecology, 41, 985-995. 6. Hatchwell BJ, Russell AF, MacColl ADC, Ross DJ, Fowlie MK, McGowan A (2004) Helpers increase long-term but not short-term productivity in cooperatively breeding long-tailed tits. Behavioral Ecology, 15, 1-10. 7. Hay JM, Evans PR, Ward RM, Hamer KC (2004) Poor nutritional condition as a consequence of high dominance status in the coal tit, Parus ater. Ibis, 146, 103-107. 8. Kingston T, Rossiter S (2004) Harmonic-hopping in Wallacea's bats. Nature, 429, 654-657. 9. Madden JR, Endler JA, Jury F (2004) Morphological signals of sex and status in spotted bowerbirds. Emu, 104, 21-30. 10. Madden JR, Lowe TJ, Fuller HV, Coe RL, Dasmahapatra KK, Amos W, Jury F (2004) Neighbouring male spotted bowerbirds are not related, but do maraud each other. Animal Behaviour, 68, 751-758. 11. Madden JR, Lowe TJ, Fuller HV, Dasmahapatra KK, Coe RL (2004) Local traditions of bower decoration by spotted bowerbirds in a single population. Animal Behaviour, 68, 759-765. 12. Nichols RA, Freeman KLM (2004) Using molecular markers with high mutation rates to obtain estimates that distinguish relative migration rate and population size: a demonstration using data from endemic Mauritian skinks. Molecular Ecology, 13, 775-789.
THESES 7
1. Bretman A.J. (2004) PhD Thesis (University of Leeds) Sexual selection in the field cricket Gryllus bimaculatus. 2. Chaline N.G. (2004) PhD Thesis (University of Sheffield) Reproductive conflicts and nepotism in the honey bee. 3. Evans L.M. (2004) PhD Thesis (University of Exeter) Phylogenetic assessment of Psoroptes ovis; their epidemiology and taxonomic identity explored. 4. Frantz A.C. (2004) PhD Thesis (University of Sussex) Non-invasive genetic typing in the study of badger (Meles meles) ecology. 5. *Furmankiewicz J. (2004) PhD Thesis (University of Wroclaw, Poland. [in Polish] with time spent in Leeds) Mating behaviour of brown long-eared bat Plecotus auritus (Linnaeus, 1758). 6. *Paszkiewicz R. (2004) PhD Thesis (Wroclaw University, Poland - with time spent at Sunderland University) Genetical structure and population biology of the mouse-eared bat (Myotis myotis). 7. Pedro PM (2004) PhD Thesis (University of Leeds) Impact of habitat fragmentation on species of Sabethes mosquitoes.
[2003] 16
86 1. *Berg PR, Dawson DA, Pandhal J, Kirdendall LR, Burke T (2003) Isolation of microsatellite loci from two inbreeding bark beetle species (Coccotrypes). Molecular Ecology Notes, 3, 270-273. 2. *Carpenter PJ, Dawson DA, Greig C, Parham A, Cheeseman CL, Burke T (2003) Isolation of 39 polymorphic microsatellite loci and the development of a fluorescent marker set for the Eurasian badger (Meles meles) (Carnivora: Mustelidae). Molecular Ecology Notes, 3, 610-615. 3. Davies NB, Butchart SHM, Burke TA, Châline N, Stewart IR (2003) Reed warblers guard against cuckoos and cuckoldry. Animal Behaviour, 65, 285-295. 4. Dawson DA, Bretman AJ, Tregenza T (2003) Microsatellite loci for the field cricket, Gryllus bimaculatus and their cross-utility in other species of Orthoptera. Molecular Ecology Notes, 3, 191-195. 5. Dawson DA, Burland TM, Douglas A, LeComber SC, Bradshaw M (2003) Isolation of microsatellite loci in the freshwater fish, the bitterling Rhodeus sericeus (Teleostei: Cyprinidae). Molecular Ecology Notes, 3, 199-202. 6. Evans LM, Dawson DA, Wall R, Burke T, Stevens J (2003) Isolation of Psoroptes scab mite microsatellite markers (Acari: Psoroptidae). Molecular Ecology Notes, 3, 420-424. 7. Fletcher KL & Hamer KC (2003) Sexing terns using biometrics: the advantage of within-pair comparisons. Bird Study, 50, 78-83. 8. Frantz AC, Pope LC, Carpenter PJ, Roper TJ, Wilson GJ, Delahay RJ, Burke T (2003) Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA. Molecular Ecology, 12, 1649-1661. 9. Frentui F, Lange CL, Burke T, Owens IPF (2003) Isolation of microsatellite loci in the Capricorn silvereye, Zosterops lateralis chlorocephalus (Aves: Zosteropidae). Molecular Ecology Notes, 3, 462-465. 10. *Jump AS, Woodward FI, Burke T (2003) Cirsium species show disparity in patterns of genetic variation at their range-edge, despite similar patterns of reproduction and isolation. New Phytologist, 160, 359-370. 11. Madden JR (2003) Bower decorations are good predictors of mating success in the spotted bowerbird. Behavioural Ecology and Sociobiology, 53, 269-277. 12. Madden JR (2003) Male spotted bowerbirds preferentially choose, arrange and proffer objects that are good predictors of mating success. Behavioural Ecology and Sociobiology, 53, 263-268. 13. Marshall R, Buchanan KL, Catchpole CK (2003) Sexual selection and individual genetic diversity in a songbird. Proceedings of the Royal Society of London, Series B (suppl.), S248-S250. 14. McGowan A, Woodburn RJW, Hatchwell BJ (2003) The effect of helping behaviour on the survival of juvenile and adult long-tailed tits (Aegithalos caudatus). Journal of Animal Ecology, 72, 491-499. 15. *Wilhelm K, Dawson DA, Gentle LK, Horsfield GF, Schlötterer C, Greig C, East M, Hofer H, Tautz D, Burke T (2003) Characterisation of spotted hyena, Crocuta crocuta microsatellite loci. Molecular Ecology Notes, 3, 360-362. 16. Wilson GJ, Frantz AC, Pope LC, Roper TJ, Burke TA, Cheeseman CL, Delahay RJ (2003) Estimation of badger abundance using faecal DNA typing. Journal of Applied Ecology, 40, 658- 666.
THESES 5
1. Ahmed S. (2003) PhD Thesis (University of Leeds) Pollen mediated gene flow in Ficus sycomorus L. 2. Douglas A. (2003) PhD Thesis (Queen Mary, University of London) Population ecology and behaviour of juvenile bitterling (Rhodeus serecius, Pallas). 3. Freeman K. (2003) PhD Thesis (Queen Mary, University of London) The population genetics and conservation of a Mauritian skink. 4. Hay J. (2003) PhD Thesis (University of Durham) Causes and consequences of variation in dominance status in the Paridae.
87 5. Sharp S.P. (2003) PhD Thesis (University of Sheffield) Kin recognition in the cooperative breeding system of long-tailed tits Aegithalos caudatus.
[2002] 9
1. Châline N, Ratnieks FLW, Burke T (2002) Anarchy in the UK: Detailed analysis of worker reproduction in a naturally-occurring British anarchistic honeybee, Apis mellifera, colony using microsatellite markers. Molecular Ecology, 11, 1795-1803. 2. Dawson DA & Wilcock HR (2002) Isolation and characterisation of eight polymorphic microsatellite loci in the net-spinning caddisfly, Polycentropus flavomaculatus (Polycentropodidae). Molecular Ecology Notes, 2, 514-517. 3. Hatchwell BJ, Ross DJ, Châline N, Fowlie MK, Burke T (2002) Parentage in the cooperative breeding system of long-tailed tits, Aegithalos caudatus. Animal Behaviour, 64, 55-63. 4. *Jump AS, Dawson DA, James CM, Woodward FI, Burke T (2002) Isolation of polymorphic microsatellites in the stemless thistle (Cirsium acaule) and their utility in other Cirsium species. Molecular Ecology Notes, 2, 589-592. 5. *Krupa AP, Jehle R, Dawson DA, Gentle LK, Gibbs M, Arntzen JW, Burke T (2002) Microsatellite loci in the crested newt (Triturus cristatus) and their utility in other newt taxa. Conservation Genetics, 3, 87-89. 6. MacColl ADC & Hatchwell BJ (2002) Temporal variation in fitness pay-offs promotes cooperative breeding in long-tailed tits Aegithalos caudatus. American Naturalist, 160, 186-194. 7. Madden JR (2002) Bower decorations attract females but provoke other male spotted bowerbirds - bower owners resolve this trade off. Proceedings of the Royal Society, Series B, 269, 1347-1351. 8. Phillips RA (2002) Trios of brown skuas at Bird Island, South Georgia: incidence and composition. Condor, 104, 694-697. 9. Phillips RA, Dawson DA, Ross DJ (2002) Mating patterns and reversed size dimorphism in Southern skuas (Stercorarius skua lonnbergi). Auk, 119, 858-863.
THESES
1. Carpenter P.J. (2002) PhD Thesis (University of Sheffield) A study of mating systems, inbreeding avoidance and TB rsistance in the Eurasian badger (Meles meles) using microsatellite markers. 2. Fletcher K (2002) PhD Thesis (Durham University) Sex-specific breeding ecology of common terns in NE England. 3. Fok K.W. (2002) PhD Thesis (University of Nottingham) 4. Leech D. (2002) PhD Thesis (University of Lancaster) Brood sex ratio, parentage and parental investment in the blue tit, Parus caeruleus. 5. MacGowan A. (2002) PhD Thesis (University of Sheffield) The fitness benefits of cooperative breeding in long-tailed tits, Aegithalos caudatus.
[2001] 8
1. Cunningham EJA & Russell AF (2001) Maternal investment - Sex differences in avian yolk hormone levels - Reply. Nature, 412, 498-499. 2. *Dawson DA, Darby S, Hunter FM, Krupa AP, Jones IL, Burke T (2001) A critique of CHD- based molecular sexing protocols illustrated by a Z-chromosome polymorphism detected in auklets. Molecular Ecology Notes,1, 201-204. 3. Foster KR & Ratnieks FLW (2001) Convergent evolution of worker policing by egg eating in the honeybee and common wasp. Proceedings of the Royal Society of London, Series B, 268, 169-174.
88 4. Hatchwell BJ, Anderson C, Ross DJ, Fowlie MK, Blackwell PG (2001) Social organisation of cooperatively breeding long-tailed tits: kinship and spatial dynamics. Journal of Animal Ecology, 70, 820-830. 5. Hatchwell BJ, Ross DJ, Fowlie MK, McGowan A (2001) Kin discrimination in cooperatively breeding long-tailed tits. Proceedings of the Royal Society, Series B, 268, 885-890. 6. Leech DI, Hartley IR, Stewart IRK, Griffith SC, Burke T (2001) No effect of parental quality or extrapair paternity on brood sex ratio in the blue tit (Parus caeruleus). Behavioral Ecology, 12, 674-680. 7. Nicholls EH, Burke T, Birkhead TR (2001) Ejaculate allocation by male sand martins, Riparia riparia. Proceedings of the Royal Society of London, Series B, 268, 1265-1270. 8. Russell AF & Hatchwell BJ (2001) Experimental evidence for kin-biased helping in a cooperatively breeding vertebrate. Proceedings of the Royal Society, Series B, 268, 2169-2174.
THESES 3
1. Buchanan G. (2001) PhD Thesis (University of Sunderland) Mate choice in reed buntings (Emberiza schoeniclus). 2. Eaton M. (2001) PhD Thesis (University of Durham) Determinants of habitat and site use by turnstones and purple sandpipers in N.E. England, and possible effects of the removal of coastal nutrients. 3. Madden J.R. (2001) PhD Thesis (University of Sheffield) Sex, costs and bowerbird tastes.
[2000] 4 1. Cunningham EJA & Russell AK (2000) Egg investment is influenced by male attractiveness in the mallard. Nature, 404, 74-77. 2. *Dawson DA, Hanotte O, Greig C, Stewart IRK, Burke T (2000) Polymorphic microsatellites in the blue tit Parus caeruleus and their cross-species utility in 20 songbird families. Molecular Ecology, 9, 1941-1944. 3. Foster KR & Ratnieks FLW (2000) Facultative worker policing in a social wasp. Nature, 407, 692-693. 4. *Richardson DS, Jury FL, Dawson DA, Salgueiro P, Komdeur J, Burke T (2000) Fifty Seychelles warbler (Acrocephalus sechellensis) microsatellite loci polymorphic in Sylviidae species and their cross-species amplification in other passerine birds. Molecular Ecology, 9, 2226-2231.
THESES
1. Foster K. (2000) PhD Thesis (University of Sheffield) Kin selection and reproductive conflict in the vespine wasps. 2. Marshall R. (2000) PhD Thesis (University of London) Song, microsatellite DNA and paternity in the sedge warbler, Acrocephalus schoenobaenus. 3. Nicholls H. (2000) PhD Thesis (University of Sheffield) Male adaptations to sperm competition in the sand martin, Riparia riparia. 4. Wilson MW. (2000) PhD Thesis (University of Sheffield) Reproductive strategies and paternal care in the willow warbler Phylloscopus trochilus.
[1999] 4 1. *Griffith SC, Stewart IRK, Dawson DA, Owens IPF, Burke T (1999) Contrasting levels of extra- pair paternity in mainland and island populations of the house sparrow (Passer domesticus): is there an 'island effect'? Biological Journal of the Linnean Society, 68, 303-316. 2. *McConnell SKJ, Dawson DA, Wardle A, Burke T (1999) The isolation and mapping of 19 tetranucleotide microsatellite markers in the chicken. Animal Genetics, 30, 183-189.
89 3. *Morisson M, Plisson-Petit F, Dawson D, Pitel F, Gellin J, Burke T, Vignal A (1999) 33 novel characterised chicken microsatellite loci : 20 new locations on reference maps. Animal Genetics, 30, 391-393. 4. *Wardle A, Dawson D, Gibbs M, Parham A, Burke T (1999) Further development of chicken microsatellite loci: 21 markers mapped. Animal Genetics, 30, 225-244.
THESIS
1. Marsden R. (1999) PhD Thesis (University of Sheffield) Coloniality in the sociable weaver Philetairus socius.
[1998]
1. *Dawson D, McConnell S, Wardle A, Gibbs M, Burke T (1998) Characterization and mapping of fifteen novel chicken microsatellite loci. Animal Genetics, 29, 159-160. 2. *Martinez JG, Burke T, Dawson D, Soler JJ, Møller AP (1998) Microsatellite typing reveals mating patterns in the brood parasitic great spotted cuckoo (Clamator glandarius). Molecular Ecology, 7, 289-298.
90