Reference List Flowering Time/Floral Transition

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Reference list Flowering Time/Floral Transition

August 27, 2018, 5000 references

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Dixon LE, Farre A, Finnegan EJ, Orford S, Griffiths S, Boden SA: Developmental responses of bread wheat to changes in ambient temperature following deletion of a locus that includes FLOWERING LOCUS T1. Plant Cell Environ 2018.

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Bennetzen JL, Wang X: Relationships between Gene Structure and Genome Instability in Flowering Plants. Mol Plant 2018, 11(3):407-413.

Cai Y, Chen L, Liu X, Guo C, Sun S, Wu C, Jiang B, Han T, Hou W: CRISPR/Cas9- mediated targeted mutagenesis of GmFT2a delays flowering time in soya bean. Plant Biotechnol J 2018, 16(1):176-185.

Chen Q, Payyavula RS, Chen L, Zhang J, Zhang C, Turgeon R: FLOWERING LOCUS T mRNA is synthesized in specialized companion cells in Arabidopsisand Maryland Mammoth tobacco leaf veins. Proceedings of the National Academy of Sciences 2018.

Shah S, Weinholdt C, Jedrusik N, Molina C, Zou J, Grosse I, Schiessl S, Jung C, Emrani N: Whole-transcriptome analysis reveals genetic factors underlying flowering time regulation in rapeseed (Brassica napus L.). Plant Cell Environ 2018, 41(8):1935-1947.

Drost H-G, Gabel A, Liu J, Quint M, Grosse I: myTAI: evolutionary transcriptomics with R. Bioinformatics 2018, 34(9):1589-1590.

Fung-Uceda J, Lee K, Seo PJ, Polyn S, De Veylder L, Mas P: The Circadian Clock Sets the Time of DNA Replication Licensing to Regulate Growth in Arabidopsis. Dev Cell 2018, 45(1):101-113 e104.

Endo M, Yoshida M, Sasaki Y, Negishi K, Horikawa K, Daimon Y, Kurotani KI, Notaguchi M, Abe M, Araki T: Reevaluation of florigen transport kinetics with separation of function mutations that uncouple flowering initiation and long-distance transport. Plant Cell Physiol 2018.

Gao R, Wang Y, Gruber MY, Hannoufa A: miR156/SPL10 Modulates Lateral Root Development, Branching and Leaf Morphology in Arabidopsis by Silencing AGAMOUS- LIKE 79. Front Plant Sci 2018, 8(2226).

Huang F, Liu T, Wang J, Hou X: Isolation and functional characterization of a floral repressor, BcFLC2, from Pak-choi (Brassica rapa ssp. chinensis). Planta 2018.

Liu C, Qu X, Zhou Y, Song G, Abiri N, Xiao Y, Liang F, Jiang D, Hu Z, Yang D: OsPRR37 confers an expanded regulation of the diurnal rhythms of the transcriptome and photoperiodic flowering pathways in rice. Plant Cell Environ 2018, 41(3):630-645. Diaz-Manzano FE, Cabrera J, Ripoll JJ, Del Olmo I, Andres MF, Silva AC, Barcala M, Sanchez M, Ruiz-Ferrer V, de Almeida-Engler J, Yanofsky MF, Pineiro M, Jarillo JA, Fenoll C, Escobar C (2018) A role for the gene regulatory module microRNA172/TARGET OF EARLY ACTIVATION TAGGED 1/FLOWERING LOCUS T (miRNA172/TOE1/FT) in the feeding sites induced by Meloidogyne javanica in Arabidopsis thaliana. New Phytol. 217: 813-827

Eom H, Park SJ, Kim MK, Kim H, Kang H, Lee I (2018) TAF15b, involved in the autonomous pathway for flowering, represses transcription of FLOWERING LOCUS C. Plant J. 93: 79-91

Wu W, Zhang Y, Zhang M, Zhan X, Shen X, Yu P, Chen D, Liu Q, Sinumporn S, Hussain K, Cheng S, Cao L (2018) The rice CONSTANS-like protein OsCOL15 suppresses flowering by promoting Ghd7 and repressing RID1. Biochem. Biophys. Res. Commun. 495: 1349-1355

Adeyemo OS, Chavarriaga P, Tohme J, Fregene M, Davis SJ, Setter TL (2017) Overexpression of Arabidopsis FLOWERING LOCUS T (FT) gene improves floral development in cassava (Manihot esculenta, Crantz). PLoS ONE 12: e0181460

Ahmed S, Ariyaratne M, Patel J, Howard AE, Kalinoski A, Phuntumart V, Morris PF (2017) Altered expression of polyamine transporters reveals a role for spermidine in the timing of flowering and other developmental response pathways. Plant Sci. 258: 146-155

Alqudah AM, Schnurbusch T (2017) Heading Date Is Not Flowering Time in Spring Barley. Front. Plant Sci. 8

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Bartrina I, Jensen H, Novak O, Strnad M, Werner T, Schmülling T (2017) Gain-of- function mutants of the Arabidopsis cytokinin receptors AHK2 and AHK3 regulate plant organ size, flowering time and plant longevity. Plant Physiology 173, 1783-1797 http://www.plantphysiol.org/content/early/2017/01/17/pp.16.01903

Bhakta MS, Gezan SA, Clavijo Michelangeli JA, Carvalho M, Zhang L, Jones JW, Boote KJ, Correll MJ, Beaver J, Osorno JM, Colbert R, Rao I, Beebe S, Goanzalez A, Ricaurte J, Vallejos CE (2017) A Predictive Model for Time-to-Flowering in the Common Bean Based on QTL and Environmental Variables. G3 (Bethesda)

Bloomer RH, Dean C (2017) Fine-tuning timing: natural variation informs the mechanistic basis of the switch to flowering in Arabidopsis thaliana. J. Exp. Bot.

Bonnafous F, Fievet G, Blanchet N, Boniface MC, Carrere S, Gouzy J, Legrand L, Marage G, Bret-Mestries E, Munos S, Pouilly N, Vincourt P, Langlade N, Mangin B (2017) Comparison of GWAS models to identify non-additive genetic control of flowering time in sunflower hybrids. Theor. Appl. Genet.

Brambilla V, Fornara F (2017) Y flowering? Regulation and activity of CONSTANS and CCT-domain proteins in Arabidopsis and crop species. Biochim. Biophys. Acta 1860: 655-660

Bull SE, Alder A, Barsan C, Kohler M, Hennig L, Gruissem W, Vanderschuren H (2017) FLOWERING LOCUS T Triggers Early and Fertile Flowering in Glasshouse Cassava (Manihot esculenta Crantz). Plants (Basel) 6

Campos-Rivero G, Osorio-Montalvo P, Sanchez-Borges R, Us-Camas R, Duarte-Ake F, De-la-Pena C (2017) Plant hormone signaling in flowering: An epigenetic point of view. J. Plant Physiol. 214: 16-27

Catorci A, Piermarteri K, Penksza K, Hazi J, Tardella FM (2017) Filtering effect of temporal niche fluctuation and amplitude of environmental variations on the trait-related flowering patterns: lesson from sub-Mediterranean grasslands. Sci Rep 7: 12034

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Chaturvedi AK, Bahuguna RN, Shah D, Pal M, Jagadish SVK (2017) High temperature stress during flowering and grain filling offsets beneficial impact of elevated CO2 on assimilate partitioning and sink-strength in rice. Sci Rep 7: 8227

Chen J, Li R, Xia Y, Bai G, Guo P, Wang Z, Zhang H, Siddique KHM (2017a) Development of EST-SSR markers in flowering Chinese cabbage (Brassica campestris L. ssp. chinensis var. utilis Tsen et Lee) based on de novo transcriptomic assemblies. PLoS ONE 12: e0184736

Chen L, Dong F, Cai J, Xin Q, Fang C, Liu L, Wan L, Yang G, Hong D (2017b) A 2.833- kb Insertion in BnFLC.A2 and Its Homeologous Exchange with BnFLC.C2 during Breeding Selection Generated Early-flowering Rapeseed. Mol. Plant

Chen L, Zhang B, Li Q (2017c) Pollinator-mediated selection on flowering phenology and floral display in a distylous herb Primula alpicola. Sci Rep 7: 13157

Chen L, Zhang L, Yu D (2017d) Transcription factor WRKY75 interacts with DELLA proteins to affect flowering. Plant Physiol.

Chen Y, Shen Q, Lin R, Zhao Z, Shen C, Sun C (2017e) De novo transcriptome analysis in Dendrobium and identification of critical genes associated with flowering. Plant Physiol. Biochem. 119: 319-327

Cheng JZ, Zhou YP, Lv TX, Xie CP, Tian CE (2017) Research progress on the autonomous flowering time pathway in Arabidopsis. Physiol. Mol. Biol. Plants 23: 477- 485

Cho Y, Yu CY, Nakamura Y, Kanehara K (2017) Arabidopsis dolichol kinase AtDOK1 is involved in flowering time control. J. Exp. Bot. 68: 3243-3252 Cortes-Flores J, Hernandez-Esquivel KB, Gonzalez-Rodriguez A, Ibarra-Manriquez G (2017) Flowering phenology, growth forms, and pollination syndromes in tropical dry forest species: Influence of phylogeny and abiotic factors. Am. J. Bot. 104: 39-49

Costa JH, Dos Santos CP, da Cruz Saraiva KD, Arnholdt-Schmitt B (2017) A Step-by- Step Protocol for Classifying AOX Proteins in Flowering Plants. Methods Mol. Biol. 1670: 225-234

Cui M, Jia B, Liu H, Kan X, Zhang Y, Zhou R, Li Z, Yang L, Deng D, Yin Z (2017a) Genetic Mapping of the Leaf Number above the Primary Ear and Its Relationship with Plant Height and Flowering Time in Maize. Front. Plant Sci. 8: 1437

Cui Z, Tong A, Huo Y, Yan Z, Yang W, Yang X, Wang XX (2017b) SKIP controls flowering time via the alternative splicing of SEF pre-mRNA in Arabidopsis. BMC Biol 15: 80

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Diaz-Manzano FE, Cabrera J, Ripoll JJ, Del Olmo I, Andres MF, Silva AC, Barcala M, Sanchez M, Ruiz-Ferrer V, de Almeida-Engler J, Yanofsky MF, Pineiro M, Jarillo JA, Fenoll C, Escobar C (2017) A role for the gene regulatory module microRNA172/TARGET OF EARLY ACTIVATION TAGGED 1/FLOWERING LOCUS T (miRNA172/TOE1/FT) in the feeding sites induced by Meloidogyne javanica in Arabidopsis thaliana. New Phytol.

Dittmar EL, Schemske DW (2017) The edaphic environment mediates flowering-time differentiation between adjacent populations of Leptosiphon parviflorus. J. Hered.

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Du A, Tian W, Wei M, Yan W, He H, Zhou D, Huang X, Li S, Ouyang X (2017) The DTH8-Hd1 Module Mediates Day-Length-Dependent Regulation of Rice Flowering. Mol. Plant 10: 948-961

Duffy KJ, Johnson SD (2017) Specialized mutualisms may constrain the geographical distribution of flowering plants. Proc Biol Sci 284 Durand JB, Allard A, Guitton B, van de Weg E, Bink M, Costes E (2017) Predicting Flowering Behavior and Exploring Its Genetic Determinism in an Apple Multi-family Population Based on Statistical Indices and Simplified Phenotyping. Front. Plant Sci. 8: 858

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Farhi J, Tian G, Fang H, Maxwell D, Xing T, Tian L (2017) Histone deacetylase HD2D is involved in regulating plant development and flowering time in Arabidopsis. Plant Signal. Behav. 12: e1300742

Ferradas Y, Martinez O, Rey M, Gonzalez MV (2017) Identification and expression analysis of photoreceptor genes in kiwifruit leaves under natural daylength conditions and their relationship with other genes that regulate photoperiodic flowering. J. Plant Physiol. 213: 108-121

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Goralogia GS, Liu TK, Zhao L, Panipinto PM, Groover ED, Bains YS, Imaizumi T (2017) CYCLING DOF FACTOR 1 represses transcription through the TOPLESS co-repressor to control photoperiodic flowering in Arabidopsis. Plant J. 92: 244-262 Gotz KP, Erekul O, Wutzke KD, Koca YO, Aksu T (2017) 15N allocation into wheat grains (Triticum aestivum L.) influenced by sowing rate and water supply at flowering under a Mediterranean climate. Isotopes Environ Health Stud 53: 274-285

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Jamann TM, Sood S, Wisser RJ, Holland JB (2017) High-Throughput Resequencing of Maize Landraces at Genomic Regions Associated with Flowering Time. PLoS ONE 12: e0168910

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Jian Y, Xu C, Guo Z, Wang S, Xu Y, Zou C (2017) Maize (Zea mays L.) genome size indicated by 180-bp knob abundance is associated with flowering time. Sci Rep 7: 5954

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Li Y, Wang H, Li X, Liang G, Yu D (2017b) Two DELLA-interacting proteins bHLH48 and bHLH60 regulate flowering under long-day conditions in Arabidopsis thaliana. J. Exp. Bot. 68: 2757-2767

Li YF, Zhang MF, Zhang M, Jia GX (2017c) Analysis of global gene expression profiles during the flowering initiation process of Lilium x formolongi. Plant Mol. Biol. 94: 361- 379

Lin YL, Tsay YF (2017) Influence of differing nitrate and nitrogen availability on flowering control in Arabidopsis. J. Exp. Bot. 68: 2603-2609

Liu C, Chang C, Fei Y, Li F, Wang Q, Zhai G, Lei J (2017a) Cadmium accumulation in edible flowering cabbages in the Pearl River Delta, China: Critical soil factors and enrichment models. Environ. Pollut. Liu M, Lei L, Miao F, Powers C, Zhang X, Deng J, Tadege M, Carver BF, Yan L (2017b) The STENOFOLIA gene from Medicago alters leaf width, flowering time and chlorophyll content in transgenic wheat. Plant Biotechnol. J.

Liu W, Jiang B, Ma L, Zhang S, Zhai H, Xu X, Hou W, Xia Z, Wu C, Sun S, Wu T, Chen L, Han T (2017c) Functional diversification of Flowering Locus T homologs in soybean: GmFT1a and GmFT2a/5a have opposite roles in controlling flowering and maturation. New Phytol.

Liu X, Lister DL, Zhao Z, Petrie CA, Zeng X, Jones PJ, Staff RA, Pokharia AK, Bates J, Singh RN, Weber SA, Motuzaite Matuzeviciute G, Dong G, Li H, Lu H, Jiang H, Wang J, Ma J, Tian D, Jin G, Zhou L, Wu X, Jones MK (2017d) Journey to the east: Diverse routes and variable flowering times for wheat and barley en route to prehistoric China. PLoS ONE 12: e0187405

Liu Y, Ke L, Wu G, Xu Y, Wu X, Xia R, Deng X, Xu Q (2017e) miR3954 is a trigger of phasiRNAs that affects flowering time in citrus. Plant J. 92: 263-275

Liu Y, Zhao Q, Meng N, Song H, Li C, Hu G, Wu J, Lin S, Zhang Z (2017f) Over- expression of EjLFY-1 Leads to an Early Flowering Habit in Strawberry (Fragaria x ananassa) and Its Asexual Progeny. Front. Plant Sci. 8: 496

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Lu X, Li J, Chen H, Hu J, Liu P, Zhou B (2017) RNA-seq analysis of apical meristem reveals integrative regulatory network of ROS and chilling potentially related to flowering in Litchi chinensis. Sci Rep 7: 10183

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Mallikarjuna BP, Samineni S, Thudi M, Sajja SB, Khan AW, Patil A, Viswanatha KP, Varshney RK, Gaur PM (2017) Molecular Mapping of Flowering Time Major Genes and QTLs in Chickpea (Cicer arietinum L.). Front. Plant Sci. 8: 1140 Mao T, Li J, Wen Z, Wu T, Wu C, Sun S, Jiang B, Hou W, Li W, Song Q, Wang D, Han T (2017) Association mapping of loci controlling genetic and environmental interaction of soybean flowering time under various photo-thermal conditions. BMC Genomics 18: 415

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Masalia RR, Bewick AJ, Burke JM (2017) Connectivity in gene coexpression networks negatively correlates with rates of molecular evolution in flowering plants. PLoS ONE 12: e0182289

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Mizunaga Y, Kudo G (2017) A linkage between flowering phenology and fruit-set success of alpine plant communities with reference to the seasonality and pollination effectiveness of bees and flies. Oecologia 185: 453-464

Monnahan PJ, Kelly JK (2017) The Genomic Architecture of Flowering Time Varies Across Space and Time in Mimulus guttatus. Genetics 206: 1621-1635

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Nasim Z, Fahim M, Ahn JH (2017) Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay. Front. Plant Sci. 8: 191

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Kiss T, Balla K, Veisz O, Láng L, Bedő Z, Griffiths S, Isaac P, Karsai I (2014) Allele frequencies in the VRN-A1, VRN-B1 and VRN-D1 vernalization response and PPD-B1 and PPD-D1 photoperiod sensitivity genes, and their effects on heading in a diverse set of wheat cultivars (Triticum aestivum L.). Mol Breed 34 (2):297-310. doi:10.1007/s11032- 014-0034-2

Fechter I, Hausmann L, Zyprian E, Daum M, Holtgräwe D, Weisshaar B, Töpfer R (2014) QTL analysis of flowering time and ripening traits suggests an impact of a genomic region on linkage group 1 in Vitis. Theor Appl Genet 127 (9):1857-1872. doi:10.1007/s00122- 014-2310-2

Wang M, Yu Y, Haberer G, Marri PR, Fan C, Goicoechea JL, Zuccolo A, Song X, Kudrna D, Ammiraju JSS, Cossu RM, Maldonado C, Chen J, Lee S, Sisneros N, de Baynast K, Golser W, Wissotski M, Kim W, Sanchez P, Ndjiondjop M-N, Sanni K, Long M, Carney J, Panaud O, Wicker T, Machado CA, Chen M, Mayer KFX, Rounsley S, Wing RA (2014) The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication. Nat Genet 46 (9):982-988. doi:10.1038/ng.3044 http://www.nature.com/ng/journal/v46/n9/abs/ng.3044.html#supplementary-information

Yang H, Howard M, Dean C (2014) Antagonistic Roles for H3K36me3 and H3K27me3 in the Cold-Induced Epigenetic Switch at Arabidopsis FLC. Curr Biol 24 (15):1793-1797. doi:http://dx.doi.org/10.1016/j.cub.2014.06.047

Li W, Zhou Y, Liu X, Yu P, Cohen JD, Meyerowitz EM (2013) LEAFY Controls Auxin Response Pathways in Floral Primordium Formation, vol 6. vol 270. doi:10.1126/scisignal.2003937

Nelson MN, Rajasekaran R, Smith A, Chen S, Beeck CP, Siddique KHM, Cowling WA (2014) Quantitative Trait Loci for Thermal Time to Flowering and Photoperiod Responsiveness Discovered in Summer Annual-Type Brassica napus L. PLoS ONE 9 (7):e102611. doi:10.1371/journal.pone.0102611

Wang N, Li F, Chen B, Xu K, Yan G, Qiao J, Li J, Gao G, Bancroft I, Meng J, King G, Wu X (2014) Genome-wide investigation of genetic changes during modern breeding of Brassica napus. Theor Appl Genet 127 (8):1817-1829. doi:10.1007/s00122-014-2343-6

Niwa M, Endo M, Araki T (2013) Florigen is involved in axillary bud development at multiple stages in Arabidopsis. Plant Signal Behav 8 (11):e27167

Keilwagen J, Kilian B, Ozkan H, Babben S, Perovic D, Mayer KF, Walther A, Poskar CH, Ordon F, Eversole K, Borner A, Ganal M, Knupffer H, Graner A, Friedel S (2014) Separating the wheat from the chaff - a strategy to utilize plant genetic resources from ex situ genebanks. Sci Rep 4:5231. doi:10.1038/srep05231

Zhong Z, Wu W, Wang H, Chen L, Liu L, Wang C, Zhao Z, Lu G, Gao H, Wei X, Yu C, Chen M, Shen Y, Zhang X, Cheng Z, Wang J, Jiang L, Wan J (2014) Fine mapping of a minor-effect QTL, DTH12, controlling heading date in rice by up-regulation of florigen genes under long-day conditions. Mol Breed 34 (2):311-322. doi:10.1007/s11032-014- 0035-1

Guo L, Gao Z, Qian Q (2014) Application of resequencing to rice genomics, functional genomics and evolutionary analysis. Rice 7 (1):4

Staiger D, Shin J, Johansson M, Davis SJ (2013) The circadian clock goes genomic. Genome Biol 14 (6):208. doi:10.1186/gb-2013-14-6-208

Van Dijk H, Hautekeete NC (2014) Evidence of genetic change in the flowering phenology of sea beets along a latitudinal cline within two decades. J Evol Biol. doi:10.1111/jeb.12410

Pyo Y, Park S, Xi Y, Sung S (2014) Chapter Two - Regulation of Flowering by Vernalisation in Arabidopsis. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 29-61. doi:http://dx.doi.org/10.1016/B978-0-12-417162- 6.00002-X

Broholm SK, Teeri TH, Elomaa P (2014) Chapter Ten - Molecular Control of Inflorescence Development in Asteraceae. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 297-333. doi:http://dx.doi.org/10.1016/B978-0-12-417162-6.00010-9

Galvão VC, Schmid M (2014) Chapter Three - Regulation of Flowering by Endogenous Signals. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 63-102. doi:http://dx.doi.org/10.1016/B978-0-12-417162-6.00003-1

Kyozuka J (2014) Chapter Seven - Grass Inflorescence: Basic Structure and Diversity. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 191- 219. doi:http://dx.doi.org/10.1016/B978-0-12-417162-6.00007-9

O’Maoileidigh DS, Graciet E, Wellmer F (2014) Chapter Six - Genetic Control of Arabidopsis Flower Development. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 159-190. doi:http://dx.doi.org/10.1016/B978-0-12- 417162-6.00006-7

Osugi A, Izawa T (2014) Chapter Four - Critical Gates in Day-Length Recognition to Control the Photoperiodic Flowering. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 103-130. doi:http://dx.doi.org/10.1016/B978-0-12- 417162-6.00004-3

Tanaka W, Toriba T, Hirano H-Y (2014) Chapter Eight - Flower Development in Rice. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 221- 262. doi:http://dx.doi.org/10.1016/B978-0-12-417162-6.00008-0

Thompson B (2014) Chapter Nine - Genetic and Hormonal Regulation of Maize Inflorescence Development. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 263-296. doi:http://dx.doi.org/10.1016/B978-0-12-417162- 6.00009-2

Campoli C, von Korff M (2014) Chapter Five - Genetic Control of Reproductive Development in Temperate Cereals. In: Fabio F (ed) Advances in Botanical Research, vol Volume 72. Academic Press, pp 131-158. doi:http://dx.doi.org/10.1016/B978-0-12- 417162-6.00005-5

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Li Q, Fan C, Zhang X, Wang X, Wu F, Hu R, Fu Y (2014) Identification of a Soybean MOTHER OF FT AND TFL1 Homolog Involved in Regulation of Seed Germination. PLoS ONE 9 (6):e99642. doi:10.1371/journal.pone.0099642

Kim W, Ahn JH (2014) MicroRNA-target Interactions: Important Signaling Modules Regulating Flowering Time in Diverse Plant Species. Crit Rev Plant Sci 33 (6):470-485. doi:10.1080/07352689.2014.917533

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Xing J, Zhang J, Yang P, Jiang C, Fan J, Han J, Dong J (2014) SDR6 is involved in regulation of flowering time in Arabidopsis thaliana. Plant Biotechnol advpub. doi:10.5511/plantbiotechnology.14.0125b

Zou X, Suppanz I, Raman H, Hou J, Wang J, Long Y, Jung C, Meng J (2012) Comparative Analysis of FLC Homologues in Brassicaceae Provides Insight into Their Role in the Evolution of Oilseed Rape. PLoS ONE 7 (9):e45751. doi:10.1371/journal.pone.0045751

Villajuana-Bonequi M, Elrouby N, Nordstrom K, Griebel T, Bachmair A, Coupland G (2014) Elevated salicylic acid levels conferred by increased expression of ISOCHORISMATE SYNTHASE 1 contribute to hyperaccumulation of SUMO1 conjugates in the Arabidopsis mutant early in short days 4. Plant J. doi:10.1111/tpj.12549

Todesco M, Balasubramanian S, Cao J, Ott F, Sureshkumar S, Schneeberger K, Meyer RC, Altmann T, Weigel D (2012) Natural variation in biogenesis efficiency of individual Arabidopsis thaliana microRNAs. Current biology : CB 22 (2):166-170. doi:10.1016/j.cub.2011.11.060

Snowdon RJ, Iniguez Luy FL (2012) Potential to improve oilseed rape and canola breeding in the genomics era. Plant Breed 131 (3):351-360. doi:10.1111/j.1439- 0523.2012.01976.x

Shin J, Heidrich K, Sanchez-Villarreal A, Parker JE, Davis SJ (2012) TIME FOR COFFEE Represses Accumulation of the MYC2 Transcription Factor to Provide Time-of- Day Regulation of Jasmonate Signaling in Arabidopsis. Plant Cell 24 (6):2470-2482. doi:10.1105/tpc.111.095430

Shin J, Anwer MU, Davis SJ (2013) Phytochrome-Interacting Factors (PIFs) as Bridges between Environmental Signals and the Circadian Clock: Diurnal Regulation of Growth and Development. Mol Plant 6 (3):592-595. doi:10.1093/mp/sst060

Sanchez-Villarreal A, Shin J, Bujdoso N, Obata T, Neumann U, Du SX, Ding Z, Davis AM, Shindo T, Schmelzer E, Sulpice R, Nunes-Nesi A, Stitt M, Fernie AR, Davis SJ (2013) TIME FOR COFFEE is an essential component in the maintenance of metabolic homeostasis in Arabidopsis thaliana. Plant J 76 (2):188-200. doi:10.1111/tpj.12292

Rosloski SM, Singh A, Jali SS, Balasubramanian S, Weigel D, Grbic V (2013) Functional analysis of splice variant expression of MADS AFFECTING FLOWERING 2 of Arabidopsis thaliana. Plant Mol Biol 81 (1-2):57-69. doi:10.1007/s11103-012-9982-2

Pose D, Verhage L, Ott F, Yant L, Mathieu J, Angenent GC, Immink RG, Schmid M (2013) Temperature-dependent regulation of flowering by antagonistic FLM variants. Nature 503 (7476):414-417. doi:10.1038/nature12633

Koskela EA, Mouhu K, Albani MC, Kurokura T, Rantanen M, Sargent DJ, Battey NH, Coupland G, Elomaa P, Hytonen T (2012) Mutation in TERMINAL FLOWER1 Reverses the Photoperiodic Requirement for Flowering in the Wild Strawberry Fragaria vesca. Plant Physiol 159 (3):1043-1054. doi:10.1104/pp.112.196659

Hoenicka H, Lautner S, Klingberg A, Koch G, El-Sherif F, Lehnhardt D, Zhang B, Burgert I, Odermatt J, Melzer S, Fromm J, Fladung M (2012) Influence of overexpression of the FLOWERING PROMOTING FACTOR 1 gene (FPF1) from Arabidopsis on wood formation in hybrid poplar (Populus tremula L. x P. tremuloides Michx.). Planta 235 (2):359-373. doi:10.1007/s00425-011-1507-8

Herrero E, Kolmos E, Bujdoso N, Yuan Y, Wang M, Berns MC, Uhlworm H, Coupland G, Saini R, Jaskolski M, Webb A, Goncalves J, Davis SJ (2012) EARLY FLOWERING4 Recruitment of EARLY FLOWERING3 in the Nucleus Sustains the Arabidopsis Circadian Clock. Plant Cell 24 (2):428-443. doi:10.1105/tpc.111.093807

Debieu M, Tang C, Stich B, Sikosek T, Effgen S, Josephs E, Schmitt J, Nordborg M, Koornneef M, de Meaux J (2013) Co-Variation between Seed Dormancy, Growth Rate and Flowering Time Changes with Latitude in Arabidopsis thaliana. PLoS ONE 8 (5):e61075. doi:10.1371/journal.pone.0061075

Bergonzi S, Albani MC, Ver Loren van Themaat E, Nordstrom KJ, Wang R, Schneeberger K, Moerland PD, Coupland G (2013) Mechanisms of age-dependent response to winter temperature in perennial flowering of Arabis alpina. Science 340 (6136):1094-1097. doi:10.1126/science.1234116

Albani MC, Castaings L, Wotzel S, Mateos JL, Wunder J, Wang R, Reymond M, Coupland G (2012) PEP1 of Arabis alpina Is Encoded by Two Overlapping Genes That Contribute to Natural Genetic Variation in Perennial Flowering. PLoS Genet 8 (12):e1003130. doi:10.1371/journal.pgen.1003130

Quint M, Drost HG, Gabel A, Ullrich KK, Bonn M, Grosse I (2012) A transcriptomic hourglass in plant embryogenesis. Nature 490 (7418):98-101. doi:10.1038/nature11394

Nettling M, Thieme N, Both A, Grosse I (2014) DRUMS: Disk Repository with Update Management and Select option for high throughput sequencing data. BMC Bioinformatics 15:38. doi:10.1186/1471-2105-15-38

Nakamura Y, Andres F, Kanehara K, Liu YC, Dörmann P, Coupland G (2014) Arabidopsis florigen FT binds to diurnally oscillating phospholipids that accelerate flowering. Nat Commun 5:3553 Hedtke I, Lemnian IM, Müller-Hannemann M, Grosse I (2014) On optimal read trimming in next generation sequencing and its complexity. Proceedings of AlCoB 8542:83-94

Grau J, Keilwagen J, Gohr A, Paponov IA, Posch S, Seifert M, Strickert M, Grosse I (2013) Dispom: a discriminative de-novo motif discovery tool based on the jstacs library. J Bioinform Comput Biol 11 (1):1340006. doi:10.1142/S0219720013400064

Grau J, Keilwagen J, Gohr A, Haldemann B, Posch S, Grosse I (2012) Jstacs: A Java Framework for Statistical Analysis and Classification of Biological Sequences Journal of Machine Learning Research 13 (1967-1971)

Eggeling R, Roos T, Myllymäki P, Grosse I (2014) Robust learning of inhomogeneous PMMs. Journal of Machine Learning Research 33:229-237

Anwer MU, Boikoglou E, Herrero E, Hallstein M, Davis AM, James GV, Davis SJ (2014) Natural variation reveals that intracellular distribution of ELF3 protein is associated with function in the circadian clock. Elife 10.7554/eLife.02206. doi:http://dx.doi.org/10.7554/eLife.02206

Vetter MM, Kronholm I, He F, Haweker H, Reymond M, Kronholm I, Bergelson J, Robatzek S, De Meaux J (2012) Flagellin Perception Varies Quantitatively in Arabidopsis thaliana and Its Relatives. Mol Biol Evol 29 (6). doi:10.1093/molbev/mss011.

Sarnowska EA, Rolicka AT, Bucior E, Cwiek P, Tohge T, Fernie AR, Jikumaru Y, Kamiya Y, Franzen R, Schmelzer E, Porri A, Sacharowski S, Gratkowska DM, Zugaj DL, Taff A, Zalewska A, Archacki R, Davis SJ, Coupland G, Koncz C, Jerzmanowski A, Sarnowski TJ (2013) DELLA-interacting SWI3C core subunit of switch/sucrose nonfermenting chromatin remodeling complex modulates gibberellin responses and hormonal cross talk in Arabidopsis. Plant Physiol 163 (1):305-317. doi:10.1104/pp.113.223933

Pakull B, Kersten B, Lueneburg J, Fladung M (2014) A simple PCR-based marker to determine sex in aspen. Plant Biol (Stuttg) in press

Langer SM, Longin CFH, Würschum T (2014) Phenotypic evaluation of floral and flowering traits with relevance for hybrid breeding in wheat (Triticum aestivum L.). Plant Breed accepted

Koenig D, Jimenez-Gomez JM, Kimura S, Fulop D, Chitwood DH, Headland LR, Kumar R, Covington MF, Devisetty UK, Tat AV, Tohge T, Bolger A, Schneeberger K, Ossowski S, Lanz C, Xiong G, Taylor-Teeples M, Brady SM, Pauly M, Weigel D, Usadel B, Fernie AR, Peng J, Sinha NR, Maloof JN (2013) Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. Proc Natl Acad Sci U S A 110 (28):E2655- 2662. doi:10.1073/pnas.1309606110

James GV, Patel V, Nordstrom KJ, Klasen JR, Salome PA, Weigel D, Schneeberger K (2013) User guide for mapping-by-sequencing in Arabidopsis. Genome Biol 14 (6):R61. doi:10.1186/gb-2013-14-6-r61

Edwards D, Batley J, Snowdon RJ (2013) Accessing complex crop genomes with next- generation sequencing. TAG Theoretical and applied genetics Theoretische und angewandte Genetik 126 (1):1-11. doi:10.1007/s00122-012-1964-x Ahuja MR, Fladung M (2014) Integration and inheritance of transgenes in crop plants and trees. . Tree Genet Genomes in press. doi:10.1007/s11295-014-0724-2

Würschum T, Langer SM, Longin CF, Korzun V, Akhunov E, Ebmeyer E, Schachschneider R, Schacht J, Kazman E, Reif JC (2013) Population structure, genetic diversity and linkage disequilibrium in elite winter wheat assessed with SNP and SSR markers. Theor Appl Genet 126 (6):1477-1486. doi:10.1007/s00122-013-2065-1

Streitner C, Simpson CG, Shaw P, Danisman S, Brown JW, Staiger D (2013) Small changes in ambient temperature affect alternative splicing in Arabidopsis thaliana. Plant Signal Behav 8 (7):e24638. doi:10.4161/psb.24638

Schmal C, Reimann P, Staiger D (2013) A circadian clock-regulated toggle switch explains AtGRP7 and AtGRP8 oscillations in Arabidopsis thaliana. PLoS Comput Biol 9 (3):e1002986. doi:10.1371/journal.pcbi.1002986

Löhr B, Streitner C, Steffen A, Lange T, Staiger D (2014) A glycine-rich RNA-binding protein affects gibberellin biosynthesis in Arabidopsis. Mol Biol Rep 41 (1):439-445. doi:10.1007/s11033-013-2878-7

Baerenfeller K, Bastow R, Beynon J, Brady S, Brendel V, S. D, Dooley R, Forster M, Friesner J, Gifford D, Grotewold E, Gutierrez R, Huala E, Jaiswal P, Joshi HJ, Kersey P, Liu L, Loraine A, Lyons E, May S, Mayer K, MacLean D, Meyers B, Mueller L, Muller R, Muller H-M, Ouellette F, Pires JC, Provart N, Staiger D, Stanzione D, Taylor JM, Taylor C, Town C, Vaughn M, Walsh S, Ware D, Weckwerth W (2012) Taking the next step: building an Arabidopsis information portal. Plant Cell 24 (6):2248-2256. doi:10.1105/tpc.112.100669

Schnaithmann F, Kopahnke D, Pillen K (2014) A first step toward the development of a barley NAM population and its utilization to detect QTLs conferring leaf rust seedling resistance. Theor Appl Genet. doi:10.1007/s00122-014-2315-x

Muller LM, von Korff M, Davis SJ (2014) Connections between circadian clocks and carbon metabolism reveal species-specific effects on growth control. J Exp Bot. doi:10.1093/jxb/eru117

Mascher M, Richmond TA, Gerhardt DJ, Himmelbach A, Clissold L, Sampath D, Ayling S, Steuernagel B, Pfeifer M, D'Ascenzo M, Akhunov ED, Hedley PE, Gonzales AM, Morrell PL, Kilian B, Blattner FR, Scholz U, Mayer KF, Flavell AJ, Muehlbauer GJ, Waugh R, Jeddeloh JA, Stein N (2013) Barley whole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J 76 (3):494-505. doi:10.1111/tpj.12294

Kersten B, Pakull B, Groppe K, Lueneburg J, Fladung M (2014) The sex-linked region in Populus tremuloides Turesson 141 corresponds to a pericentromeric region of about two million base pairs on P. trichocarpa chromosome 19. Plant Biol (Stuttg) 16 (2):411-418. doi:10.1111/plb.12048

Jakob SS, Rodder D, Engler JO, Shaaf S, Ozkan H, Blattner FR, Kilian B (2014) Evolutionary history of wild barley (Hordeum vulgare subsp. spontaneum) analyzed using multilocus sequence data and paleodistribution modeling. Genome Biol Evol 6 (3):685- 702. doi:10.1093/gbe/evu047 Fladung M, Hoenicka H, Raj Ahuja M (2013) Genomic stability and long-term transgene expression in poplar. Transgenic Res 22 (6):1167-1178. doi:10.1007/s11248-013-9719-2

Falke KC, Glander S, He F, Hu J, de Meaux J, Schmitz G (2013) The spectrum of mutations controlling complex traits and the genetics of fitness in plants. Curr Opin Genet Dev 23 (6):665-671. doi:10.1016/j.gde.2013.10.006

Campoli C, Pankin A, Drosse B, Casao CM, Davis SJ, von Korff M (2013) HvLUX1 is a candidate gene underlying the early maturity 10 locus in barley: phylogeny, diversity, and interactions with the circadian clock and photoperiodic pathways. New Phytol 199 (4):1045-1059. doi:10.1111/nph.12346

Archacki R, Buszewicz D, Sarnowski TJ, Sarnowska E, Rolicka AT, Tohge T, Fernie AR, Jikumaru Y, Kotlinski M, Iwanicka-Nowicka R, Kalisiak K, Patryn J, Halibart-Puzio J, Kamiya Y, Davis SJ, Koblowska MK, Jerzmanowski A (2013) BRAHMA ATPase of the SWI/SNF chromatin remodeling complex acts as a positive regulator of gibberellin- mediated responses in Arabidopsis. PLoS ONE 8 (3):e58588. doi:10.1371/journal.pone.0058588

Anwer MU, Davis SJ (2013) An overview of natural variation studies in the Arabidopsis thaliana circadian clock. Semin Cell Dev Biol 24 (5):422-429. doi:10.1016/j.semcdb.2013.03.006

Turck F, Coupland G (2014) Natural variation in epigenetic gene regulation and its effects on plant developmental traits. Evolution; international journal of organic evolution 68 (3):620-631. doi:10.1111/evo.12286

Schroeder H, Hoeltken AM, Fladung M (2012) Differentiation of Populus species using chloroplast single nucleotide polymorphism (SNP) markers--essential for comprehensible and reliable poplar breeding. Plant Biol 14 (2):374-381. doi:10.1111/j.1438- 8677.2011.00502.x

Nordstrom K, Albani MC, James GV, Gutjahr C, Hartwig B, Turck F, Paszowski U, Coupland G, Schneeberger K (2013) Mutation identification by direct comparison of whole-genome sequencing data from mutant and wild-type individuals using k-mers. Nat Biotechnol accepted

Fladung M, Polak O (2012) Ac/Ds-transposon activation tagging in poplar: a powerful tool for gene discovery. BMC Genomics 13:61. doi:10.1186/1471-2164-13-61

Fladung M, Altosaar I, Bartsch D, Baucher M, Boscaleri F, Gallardo F, Haggman H, Hoenicka H, Nielsen K, Paffetti D, Seguin A, Stotzky G, Vettori C (2012) European discussion forum on transgenic tree biosafety. Nat Biotechnol 30 (1):37-38. doi:10.1038/nbt.2078

Flachowsky H, Trankner C, Szankowski I, Waidmann S, Hanke MV, Treutter D, Fischer TC (2012) RNA-Mediated Gene Silencing Signals Are Not Graft Transmissible from the Rootstock to the Scion in Greenhouse-Grown Apple Plants Malus sp. International journal of molecular sciences 13 (8):9992-10009. doi:10.3390/ijms13089992

Undurraga SF, Press MO, Legendre M, Bujdoso N, Bale J, Wang H, Davis SJ, Verstrepen KJ, Queitsch C (2012) Background-dependent effects of polyglutamine variation in the Arabidopsis thaliana gene ELF3. Proc Natl Acad Sci U S A 109 (47):19363-19367. doi:10.1073/pnas.1211021109

Bujdoso N, Davis SJ (2013) Mathematical modeling of an oscillating gene circuit to unravel the circadian clock network of Arabidopsis thaliana. Front Plant Sci 4:3. doi:10.3389/fpls.2013.00003

Jiang M, Han YQ, Zhou MG, Zhao HZ, Xiao X, Hou YY, Gao J, Bai G, Luo GA (2014) The screening research of anti-inflammatory bioactive markers from different flowering phases of flos lonicerae japonicae. PLoS ONE 9 (5):e96214. doi:10.1371/journal.pone.0096214

Yang S, Weers B, Morishige D, Mullet J (2014) CONSTANS is a photoperiod regulated activator of flowering in sorghum. BMC Plant Biol 14 (1):148

Verhage L, Angenent GC, Immink RG (2014) Research on floral timing by ambient temperature comes into blossom. Trends Plant Sci. doi:10.1016/j.tplants.2014.03.009

Nan H, Cao D, Zhang D, Li Y, Lu S, Tang L, Yuan X, Liu B, Kong F (2014) GmFT2a and GmFT5a Redundantly and Differentially Regulate Flowering through Interaction with and Upregulation of the bZIP Transcription Factor GmFDL19 in Soybean. PLoS ONE 9 (5):e97669. doi:10.1371/journal.pone.0097669

Chen F, Gao M, Zhang J, Zuo A, Shang X, Cui D (2013) Molecular characterization of vernalization and response genes in bread wheat from the Yellow and Huai valley of China. BMC Plant Biol 13 (1):199. doi:10.1186/1471-2229-13-199

Bock A, Sparks TH, Estrella N, Jee N, Casebow A, Schunk C, Leuchner M, Menzel A (2014) Changes in first flowering dates and flowering duration of 232 plant species on the island of Guernsey. Glob Chang Biol. doi:10.1111/gcb.12579

CaraDonna PJ, Iler AM, Inouye DW (2014) Shifts in flowering phenology reshape a subalpine plant community. Proc Natl Acad Sci U S A 111 (13):4916-4921. doi:10.1073/pnas.1323073111

Singh H, Verma A, Ansari MW, Shukla A (2014) Physiological response of rice (Oryza sativa L.) genotypes to elevated nitrogen applied under field conditions. Plant Signal Behav 9

Austen EJ, Weis AE (2014) Temporal variation in phenotypic gender and expected functional gender within and among individuals in an annual plant. Ann Bot. doi:10.1093/aob/mcu087

Lv H, Wang Q, Zhang Y, Yang L, Fang Z, Wang X, Liu Y, Zhuang M, Lin Y, Yu H, Liu B (2014) Linkage map construction using InDel and SSR markers and QTL analysis of heading traits in Brassica oleracea var. capitata L. Mol Breed 34 (1):87-98. doi:10.1007/s11032-014-0019-1

Ehrlén J (2014) Selection on flowering time in a life-cycle context. Oikos:no-no. doi:10.1111/oik.01473

Zhu J, Pearce S, Burke A, See D, Skinner D, Dubcovsky J, Garland-Campbell K (2014) Copy number and haplotype variation at the VRN-A1 and central FR-A2 loci are associated with frost tolerance in hexaploid wheat. Theor Appl Genet 127 (5):1183-1197. doi:10.1007/s00122-014-2290-2

Dechaine J, Brock M, Weinig C (2014) QTL architecture of reproductive fitness characters in Brassica rapa. BMC Plant Biol 14 (1):66

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Searle I, Coupland G (2004) Induction of flowering by seasonal changes in photoperiod. EMBO J 23 (6):1217-1222. doi:10.1038/sj.emboj.7600117

Schwartz C, Balasubramanian S, Warthmann N, Michael TP, Lempe J, Sureshkumar S, Kobayashi Y, Maloof JN, Borevitz JO, Chory J, Weigel D (2009) Cis-regulatory Changes at FLOWERING LOCUS T Mediate Natural Variation in Flowering Responses of Arabidopsis thaliana. Genetics 183 (2):723-732. doi:10.1534/genetics.109.104984

Schneeberger K, Ossowski S, Ott F, Klein JD, Wang X, Lanz C, Smith LM, Cao J, Fitz J, Warthmann N, Henz SR, Huson DH, Weigel D (2011) Reference-guided assembly of four diverse Arabidopsis thaliana genomes. Proc Natl Acad Sci U S A 108 (25):10249-10254. doi:10.1073/pnas.1107739108

Salome PA, Bomblies K, Laitinen RA, Yant L, Mott R, Weigel D (2011) Genetic architecture of flowering-time variation in Arabidopsis thaliana. Genetics 188 (2):421- 433. doi:10.1534/genetics.111.126607

Salome PA, Bomblies K, Fitz J, Laitinen RA, Warthmann N, Yant L, Weigel D (2012) The recombination landscape in Arabidopsis thaliana F2 populations. Heredity 108 (4):447-455. doi:10.1038/hdy.2011.95

Rosloski SM, Jali SS, Balasubramanian S, Weigel D, Grbic V (2010) Natural diversity in flowering responses of Arabidopsis thaliana caused by variation in a tandem gene array. Genetics 186 (1):263-276. doi:10.1534/genetics.110.116392

Rehrauer H, Aquino C, Gruissem W, Henz SR, Hilson P, Laubinger S, Naouar N, Patrignani A, Rombauts S, Shu H, Van de Peer Y, Vuylsteke M, Weigel D, Zeller G, Hennig L (2010) AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling. Plant Physiol 152 (2):487-499. doi:10.1104/pp.109.150185

Pineiro M, Gomez-Mena C, Schaffer R, Martinez-Zapater JM, Coupland G (2003) EARLY BOLTING IN SHORT DAYS is related to chromatin remodeling factors and regulates flowering in Arabidopsis by repressing FT. Plant Cell 15 (7):1552-1562

Murtas G, Reeves PH, Fu YF, Bancroft I, Dean C, Coupland G (2003) A nuclear protease required for flowering-time regulation in Arabidopsis reduces the abundance of SMALL UBIQUITIN-RELATED MODIFIER conjugates. Plant Cell 15 (10):2308-2319. doi:10.1105/tpc.015487

Mizoguchi T, Wright L, Fujiwara S, Cremer F, Lee K, Onouchi H, Mouradov A, Fowler S, Kamada H, Putterill J, Coupland G (2005) Distinct roles of GIGANTEA in promoting flowering and regulating circadian rhythms in Arabidopsis. Plant Cell 17 (8):2255-2270. doi:10.1105/tpc.105.033464 Koo SC, Bracko O, Park MS, Schwab R, Chun HJ, Park KM, Seo JS, Grbic V, Balasubramanian S, Schmid M, Godard F, Yun DJ, Lee SY, Cho MJ, Weigel D, Kim MC (2010) Control of lateral organ development and flowering time by the Arabidopsis thaliana MADS-box Gene AGAMOUS-LIKE6. Plant J 62 (5):807-816. doi:TPJ4192 [pii]

10.1111/j.1365-313X.2010.04192.x

Jang S, Torti S, Coupland G (2009) Genetic and spatial interactions between FT, TSF and SVP during the early stages of floral induction in Arabidopsis. Plant J 60 (4):614-625. doi:10.1111/j.1365-313X.2009.03986.x

Jang S, Marchal V, Panigrahi KC, Wenkel S, Soppe W, Deng XW, Valverde F, Coupland G (2008) Arabidopsis COP1 shapes the temporal pattern of CO accumulation conferring a photoperiodic flowering response. EMBO J 27 (8):1277-1288. doi:10.1038/emboj.2008.68

Hu TT, Pattyn P, Bakker EG, Cao J, Cheng JF, Clark RM, Fahlgren N, Fawcett JA, Grimwood J, Gundlach H, Haberer G, Hollister JD, Ossowski S, Ottilar RP, Salamov AA, Schneeberger K, Spannagl M, Wang X, Yang L, Nasrallah ME, Bergelson J, Carrington JC, Gaut BS, Schmutz J, Mayer KF, Van de Peer Y, Grigoriev IV, Nordborg M, Weigel D, Guo YL (2011) The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet 43 (5):476-481. doi:10.1038/ng.807

Hermkes R, Fu YF, Nurrenberg K, Budhiraja R, Schmelzer E, Elrouby N, Dohmen RJ, Bachmair A, Coupland G (2011) Distinct roles for Arabidopsis SUMO protease ESD4 and its closest homolog ELS1. Planta 233 (1):63-73. doi:10.1007/s00425-010-1281-z

Hayama R, Coupland G (2004) The molecular basis of diversity in the photoperiodic flowering responses of Arabidopsis and rice. Plant Physiol 135 (2):677-684. doi:10.1104/pp.104.042614

Hayama R, Coupland G (2003) Shedding light on the circadian clock and the photoperiodic control of flowering. Curr Opin Plant Biol 6 (1):13-19

Hayama R, Agashe B, Luley E, King R, Coupland G (2007) A circadian rhythm set by dusk determines the expression of FT homologs and the short-day photoperiodic flowering response in Pharbitis. Plant Cell 19 (10):2988-3000. doi:10.1105/tpc.107.052480

Griffiths S, Dunford RP, Coupland G, Laurie DA (2003) The evolution of CONSTANS- like gene families in barley, rice, and Arabidopsis. Plant Physiol 131 (4):1855-1867. doi:10.1104/pp.102.016188

Giakountis A, Coupland G (2008) Phloem transport of flowering signals. Curr Opin Plant Biol 11 (6):687-694. doi:10.1016/j.pbi.2008.10.003

Farrona S, Coupland G, Turck F (2008) The impact of chromatin regulation on the floral transition. Semin Cell Dev Biol 19 (6):560-573. doi:10.1016/j.semcdb.2008.07.015

Dorca-Fornell C, Gregis V, Grandi V, Coupland G, Colombo L, Kater MM (2011) The Arabidopsis SOC1-like genes AGL42, AGL71 and AGL72 promote flowering in the shoot apical and axillary meristems. Plant J:no-no. doi:10.1111/j.1365- 313X.2011.04653.x de Felippes FF, Ott F, Weigel D (2011) Comparative analysis of non-autonomous effects of tasiRNAs and miRNAs in Arabidopsis thaliana. Nucleic Acids Res 39 (7):2880-2889. doi:10.1093/nar/gkq1240

Corbesier L, Coupland G (2006) The quest for florigen: a review of recent progress. J Exp Bot 57 (13):3395-3403. doi:10.1093/jxb/erl095

Cominelli E, Galbiati M, Albertini A, Fornara F, Conti L, Coupland G, Tonelli C (2011) DOF-binding sites additively contribute to guard cell-specificity of AtMYB60 promoter. BMC Plant Biol 11 (1):162. doi:10.1186/1471-2229-11-162

Cao J, Schneeberger K, Ossowski S, Gunther T, Bender S, Fitz J, Koenig D, Lanz C, Stegle O, Lippert C, Wang X, Ott F, Muller J, Alonso-Blanco C, Borgwardt K, Schmid KJ, Weigel D (2011) Whole-genome sequencing of multiple Arabidopsis thaliana populations. Nat Genet 43:956-963. doi:10.1038/ng.911

Ben-Naim O, Eshed R, Parnis A, Teper-Bamnolker P, Shalit A, Coupland G, Samach A, Lifschitz E (2006) The CCAAT binding factor can mediate interactions between CONSTANS-like proteins and DNA. Plant J 46 (3):462-476. doi:10.1111/j.1365- 313X.2006.02706.x

Becker C, Hagmann J, Muller J, Koenig D, Stegle O, Borgwardt K, Weigel D (2011) Spontaneous epigenetic variation in the Arabidopsis thaliana methylome. Nature advance online publication. doi:10.1038/nature10555

An H, Roussot C, Suarez-Lopez P, Corbesier L, Vincent C, Pineiro M, Hepworth S, Mouradov A, Justin S, Turnbull C, Coupland G (2004) CONSTANS acts in the phloem to regulate a systemic signal that induces photoperiodic flowering of Arabidopsis. Development 131 (15):3615-3626. doi:10.1242/dev.01231

Adrian J, Farrona S, Reimer JJ, Albani MC, Coupland G, Turck F (2010) cis-Regulatory elements and chromatin state coordinately control temporal and spatial expression of FLOWERING LOCUS T in Arabidopsis. Plant Cell 22 (5):1425-1440. doi:10.1105/tpc.110.074682

Lao NT, Long D, Kiang S, Coupland G, Shoue DA, Carpita NC, Kavanagh TA (2003) Mutation of a family 8 glycosyltransferase gene alters cell wall carbohydrate composition and causes a humidity-sensitive semi-sterile dwarf phenotype in Arabidopsis. Plant Mol Biol 53 (5):647-661. doi:10.1023/B:PLAN.0000019074.60542.6c

Cremer F, Coupland G (2003) Distinct photoperiodic responses are conferred by the same genetic pathway in Arabidopsis and in rice. Trends Plant Sci 8 (9):405-407. doi:10.1016/S1360-1385(03)00192-4

Oda A, Fujiwara S, Kamada H, Coupland G, Mizoguchi T (2004) Antisense suppression of the Arabidopsis PIF3 gene does not affect circadian rhythms but causes early flowering and increases FT expression. FEBS Lett 557 (1-3):259-264

Novatchkova M, Budhiraja R, Coupland G, Eisenhaber F, Bachmair A (2004) SUMO conjugation in plants. Planta 220 (1):1-8. doi:10.1007/s00425-004-1370-y

Casal JJ, Fankhauser C, Coupland G, Blazquez MA (2004) Signalling for developmental plasticity. Trends Plant Sci 9 (6):309-314. doi:10.1016/j.tplants.2004.04.007 Coupland G, Prat Monguio S (2005) Cell signalling and gene regulation signalling mechanisms in plants: examples from the present and the future. Curr Opin Plant Biol 8 (5):457-461. doi:10.1016/j.pbi.2005.07.016

Arnaud-Haond S, Teixeira S, Massa SI, Billot C, Saenger P, Coupland G, Duarte CM, Serrao EA (2006) Genetic structure at range edge: low diversity and high inbreeding in Southeast Asian mangrove (Avicennia marina) populations. Mol Ecol 15 (12):3515-3525. doi:10.1111/j.1365-294X.2006.02997.x

Benhamed M, Martin-Magniette ML, Taconnat L, Bitton F, Servet C, De Clercq R, De Meyer B, Buysschaert C, Rombauts S, Villarroel R, Aubourg S, Beynon J, Bhalerao RP, Coupland G, Gruissem W, Menke FL, Weisshaar B, Renou JP, Zhou DX, Hilson P (2008) Genome-scale Arabidopsis promoter array identifies targets of the histone acetyltransferase GCN5. The Plant journal : for cell and molecular biology 56 (3):493- 504. doi:10.1111/j.1365-313X.2008.03606.x

Coupland G (2008) Mechanisms and variation in plant development: sorting the wood from the trees in Vermont. Development 135 (23):3813-3816. doi:10.1242/dev.027383

Budhiraja R, Hermkes R, Muller S, Schmidt J, Colby T, Panigrahi K, Coupland G, Bachmair A (2009) Substrates related to chromatin and to RNA-dependent processes are modified by Arabidopsis SUMO isoforms that differ in a conserved residue with influence on desumoylation. Plant Physiol 149 (3):1529-1540. doi:10.1104/pp.108.135053

Khanna R, Kronmiller B, Maszle DR, Coupland G, Holm M, Mizuno T, Wu SH (2009) The Arabidopsis B-box zinc finger family. Plant Cell 21 (11):3416-3420. doi:10.1105/tpc.109.069088

Fornara F, Coupland G (2009) Plant phase transitions make a SPLash. Cell 138 (4):625- 627. doi:10.1016/j.cell.2009.08.011

Fornara F, de Montaigu A, Coupland G (2010) SnapShot: Control of flowering in Arabidopsis. Cell 141 (3):550, 550 e551-552. doi:10.1016/j.cell.2010.04.024

Elrouby N, Coupland G (2010) Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes. Proc Natl Acad Sci U S A 107 (40):17415-17420. doi:10.1073/pnas.1005452107 de Montaigu A, Toth R, Coupland G (2010) Plant development goes like clockwork. Trends in genetics : TIG 26 (7):296-306. doi:10.1016/j.tig.2010.04.003

Turck F, Coupland G (2011) Plant science. When vernalization makes sense. Science 331 (6013):36-37. doi:10.1126/science.1200786

D'Aloia M, Bonhomme D, Bouche F, Tamseddak K, Ormenese S, Torti S, Coupland G, Perilleux C (2011) Cytokinin promotes flowering of Arabidopsis via transcriptional activation of the FT paralogue TSF. The Plant journal : for cell and molecular biology 65 (6):972-979. doi:10.1111/j.1365-313X.2011.04482.x

Castrillo G, Turck F, Leveugle M, Lecharny A, Carbonero P, Coupland G, Paz-Ares J, Onate-Sanchez L (2011) Speeding cis-trans regulation discovery by phylogenomic analyses coupled with screenings of an arrayed library of Arabidopsis transcription factors. PLoS ONE 6 (6):e21524. doi:10.1371/journal.pone.0021524

Toth R, Gerding-Reimers C, Deeks MJ, Menninger S, Gallegos RM, Tonaco IA, Hubel K, Hussey PJ, Waldmann H, Coupland G (2012) Prieurianin/endosidin 1 is an actin- stabilizing small molecule identified from a chemical genetic screen for circadian clock effectors in Arabidopsis thaliana. The Plant journal : for cell and molecular biology. doi:10.1111/j.1365-313X.2012.04991.x

Manavella PA, Koenig D, Weigel D (2012) Plant secondary siRNA production determined by microRNA-duplex structure. Proc Natl Acad Sci U S A 109 (7):2461-2466. doi:10.1073/pnas.1200169109

Felippes FF, Wang JW, Weigel D (2012) MIGS: miRNA-induced gene silencing. The Plant journal : for cell and molecular biology 70 (3):541-547. doi:10.1111/j.1365- 313X.2011.04896.x

Rutter MT, Roles A, Conner JK, Shaw RG, Shaw FH, Schneeberger K, Ossowski S, Weigel D, Fenster CB (2012) Fitness of Arabidopsis Thaliana Mutation Accumulation Lines Whose Spontaneous Mutations Are Known. Evolution; international journal of organic evolution 66 (7):2335-2339. doi:10.1111/j.1558-5646.2012.01583.x

Joshi HJ, Christiansen KM, Fitz J, Cao J, Lipzen A, Martin J, Smith-Moritz AM, Pennacchio LA, Schackwitz WS, Weigel D, Heazlewood JL (2012) 1001 Proteomes: a functional proteomics portal for the analysis of Arabidopsis thaliana accessions. Bioinformatics 28 (10):1303-1306. doi:10.1093/bioinformatics/bts133

Blair C, Weigel DE, Balazik M, Keeley AT, Walker FM, Landguth E, Cushman S, Murphy M, Waits L, Balkenhol N (2012) A simulation-based evaluation of methods for inferring linear barriers to gene flow. Mol Ecol Resour. doi:10.1111/j.1755- 0998.2012.03151.x

Weigel D (2011) What developmental biologists can learn from plant pathogens. Dev Cell 20 (2):e2. doi:10.1016/j.devcel.2011.02.003

Wang JW, Park MY, Wang LJ, Koo Y, Chen XY, Weigel D, Poethig RS (2011) miRNA control of vegetative phase change in trees. PLoS Genet 7 (2):e1002012. doi:10.1371/journal.pgen.1002012

Schneeberger K, Weigel D (2011) Fast-forward genetics enabled by new sequencing technologies. Trends Plant Sci 16 (5):282-288. doi:10.1016/j.tplants.2011.02.006

Hollister JD, Smith LM, Guo YL, Ott F, Weigel D, Gaut BS (2011) Transposable elements and small RNAs contribute to gene expression divergence between Arabidopsis thaliana and Arabidopsis lyrata. Proc Natl Acad Sci U S A 108 (6):2322-2327. doi:10.1073/pnas.1018222108

Willing EM, Hoffmann M, Klein JD, Weigel D, Dreyer C (2011) Paired-end RAD-seq for de novo assembly and marker design without available reference. Bioinformatics 27 (16):2187-2193. doi:10.1093/bioinformatics/btr346

Rubio-Somoza I, Weigel D (2011) MicroRNA networks and developmental plasticity in plants. Trends Plant Sci 16 (5):258-264. doi:10.1016/j.tplants.2011.03.001 Moyroud E, Minguet EG, Ott F, Yant L, Pose D, Monniaux M, Blanchet S, Bastien O, Thevenon E, Weigel D, Schmid M, Parcy F (2011) Prediction of regulatory interactions from genome sequences using a biophysical model for the Arabidopsis LEAFY transcription factor. Plant Cell 23 (4):1293-1306. doi:10.1105/tpc.111.083329

Manavella PA, Weigel D, Wu L (2011) Argonaute10 as a miRNA locker. Cell 145 (2):173-174. doi:10.1016/j.cell.2011.03.045

Gou JY, Felippes FF, Liu CJ, Weigel D, Wang JW (2011) Negative regulation of anthocyanin biosynthesis in Arabidopsis by a miR156-targeted SPL transcription factor. Plant Cell 23 (4):1512-1522. doi:10.1105/tpc.111.084525

Smith LM, Bomblies K, Weigel D (2011) Complex evolutionary events at a tandem cluster of Arabidopsis thaliana genes resulting in a single-locus genetic incompatibility. PLoS Genet 7 (7):e1002164. doi:10.1371/journal.pgen.1002164

Rowan BA, Weigel D, Koenig D (2011) Developmental genetics and new sequencing technologies: the rise of nonmodel organisms. Dev Cell 21 (1):65-76. doi:10.1016/j.devcel.2011.05.021

Muhlebner A, Coras R, Kobow K, Feucht M, Czech T, Stefan H, Weigel D, Buchfelder M, Holthausen H, Pieper T, Kudernatsch M, Blumcke I (2012) Neuropathologic measurements in focal cortical dysplasias: validation of the ILAE 2011 classification system and diagnostic implications for MRI. Acta Neuropathol 123 (2):259-272. doi:10.1007/s00401-011-0920-1

Klein JD, Ossowski S, Schneeberger K, Weigel D, Huson DH (2011) LOCAS--a low coverage assembly tool for resequencing projects. PLoS ONE 6 (8):e23455. doi:10.1371/journal.pone.0023455

Huttner HB, Corbeil D, Thirmeyer C, Coras R, Kohrmann M, Mauer C, Kuramatsu JB, Kloska SP, Doerfler A, Weigel D, Klucken J, Winkler J, Pauli E, Schwab S, Hamer HM, Kasper BS (2012) Increased membrane shedding--indicated by an elevation of CD133- enriched membrane particles--into the CSF in partial epilepsy. Epilepsy Res 99 (1-2):101- 106. doi:10.1016/j.eplepsyres.2011.10.029

Guo YL, Zhao X, Lanz C, Weigel D (2011) Evolution of the S-locus region in Arabidopsis relatives. Plant Physiol 157 (2):937-946. doi:10.1104/pp.111.174912

Guo YL, Fitz J, Schneeberger K, Ossowski S, Cao J, Weigel D (2011) Genome-wide comparison of nucleotide-binding site-leucine-rich repeat-encoding genes in Arabidopsis. Plant Physiol 157 (2):757-769. doi:10.1104/pp.111.181990

Cortese VS, Seeger JT, Stokka GS, Hunsaker BD, Lardy GP, Weigel DJ, Brumbaugh GW (2011) Serologic response to Mannheimia haemolytica in calves concurrently inoculated with inactivated or modified-live preparations of M. haemolytica and viral combination vaccines containing modified-live bovine herpesvirus type 1. Am J Vet Res 72 (11):1541- 1549. doi:10.2460/ajvr.72.11.1541

Weigel D, Foerster R, Babovsky H, Kiessling A, Kowarschik R (2011) Enhanced resolution of microscopic objects by image inversion interferometry. Opt Express 19 (27):26451-26462. doi:10.1364/OE.19.026451 Smith LM, Weigel D (2012) On epigenetics and epistasis: hybrids and their non-additive interactions. The EMBO journal 31 (2):249-250. doi:10.1038/emboj.2011.473

Rubio-Somoza I, Weigel D, Franco-Zorilla JM, Garcia JA, Paz-Ares J (2011) ceRNAs: miRNA target mimic mimics. Cell 147 (7):1431-1432. doi:10.1016/j.cell.2011.12.003

Werner S, Wollmann H, Schneeberger K, Weigel D (2010) Structure determinants for accurate processing of miR172a in Arabidopsis thaliana. Current biology : CB 20 (1):42- 48. doi:10.1016/j.cub.2009.10.073

Schwab R, Ossowski S, Warthmann N, Weigel D (2010) Directed gene silencing with artificial microRNAs. Methods Mol Biol 592:71-88. doi:10.1007/978-1-60327-005-2_6

Rodriguez RE, Mecchia MA, Debernardi JM, Schommer C, Weigel D, Palatnik JF (2010) Control of cell proliferation in Arabidopsis thaliana by microRNA miR396. Development 137 (1):103-112. doi:10.1242/dev.043067 de Felippes FF, Weigel D (2010) Transient assays for the analysis of miRNA processing and function. Methods Mol Biol 592:255-264. doi:10.1007/978-1-60327-005-2_17

Wollmann H, Weigel D (2010) Small RNAs in flower development. Eur J Cell Biol 89 (2- 3):250-257. doi:10.1016/j.ejcb.2009.11.004

Tautz D, Ellegren H, Weigel D (2010) Next generation molecular ecology. Mol Ecol 19 Suppl 1:1-3. doi:10.1111/j.1365-294X.2009.04489.x

Skylar A, Hong F, Chory J, Weigel D, Wu X (2010) STIMPY mediates cytokinin signaling during shoot meristem establishment in Arabidopsis seedlings. Development 137 (4):541-549. doi:10.1242/dev.041426

Platt A, Horton M, Huang YS, Li Y, Anastasio AE, Mulyati NW, Agren J, Bossdorf O, Byers D, Donohue K, Dunning M, Holub EB, Hudson A, Le Corre V, Loudet O, Roux F, Warthmann N, Weigel D, Rivero L, Scholl R, Nordborg M, Bergelson J, Borevitz JO (2010) The scale of population structure in Arabidopsis thaliana. PLoS Genet 6 (2):e1000843. doi:10.1371/journal.pgen.1000843

Ossowski S, Schneeberger K, Lucas-Lledo JI, Warthmann N, Clark RM, Shaw RG, Weigel D, Lynch M (2010) The rate and molecular spectrum of spontaneous mutations in Arabidopsis thaliana. Science 327 (5961):92-94. doi:10.1126/science.1180677

Massonnet C, Vile D, Fabre J, Hannah MA, Caldana C, Lisec J, Beemster GT, Meyer RC, Messerli G, Gronlund JT, Perkovic J, Wigmore E, May S, Bevan MW, Meyer C, Rubio- Diaz S, Weigel D, Micol JL, Buchanan-Wollaston V, Fiorani F, Walsh S, Rinn B, Gruissem W, Hilson P, Hennig L, Willmitzer L, Granier C (2010) Probing the reproducibility of leaf growth and molecular phenotypes: a comparison of three Arabidopsis accessions cultivated in ten laboratories. Plant Physiol 152 (4):2142-2157. doi:10.1104/pp.109.148338

Laitinen RA, Schneeberger K, Jelly NS, Ossowski S, Weigel D (2010) Identification of a spontaneous frame shift mutation in a nonreference Arabidopsis accession using whole genome sequencing. Plant Physiol 153 (2):652-654. doi:10.1104/pp.110.156448 Khraiwesh B, Arif MA, Seumel GI, Ossowski S, Weigel D, Reski R, Frank W (2010) Transcriptional control of gene expression by microRNAs. Cell 140 (1):111-122. doi:10.1016/j.cell.2009.12.023

Fahlgren N, Jogdeo S, Kasschau KD, Sullivan CM, Chapman EJ, Laubinger S, Smith LM, Dasenko M, Givan SA, Weigel D, Carrington JC (2010) MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Plant Cell 22 (4):1074-1089. doi:10.1105/tpc.110.073999

Bomblies K, Yant L, Laitinen RA, Kim ST, Hollister JD, Warthmann N, Fitz J, Weigel D (2010) Local-scale patterns of genetic variability, outcrossing, and spatial structure in natural stands of Arabidopsis thaliana. PLoS Genet 6 (3):e1000890. doi:10.1371/journal.pgen.1000890

Bomblies K, Weigel D (2010) Arabidopsis and relatives as models for the study of genetic and genomic incompatibilities. Philosophical transactions of the Royal Society of London Series B, Biological sciences 365 (1547):1815-1823. doi:10.1098/rstb.2009.0304

Todesco M, Rubio-Somoza I, Paz-Ares J, Weigel D (2010) A collection of target mimics for comprehensive analysis of microRNA function in Arabidopsis thaliana. PLoS Genet 6 (7):e1001031. doi:10.1371/journal.pgen.1001031

Todesco M, Balasubramanian S, Hu TT, Traw MB, Horton M, Epple P, Kuhns C, Sureshkumar S, Schwartz C, Lanz C, Laitinen RA, Huang Y, Chory J, Lipka V, Borevitz JO, Dangl JL, Bergelson J, Nordborg M, Weigel D (2010) Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana. Nature 465 (7298):632-636. doi:10.1038/nature09083

Heard E, Tishkoff S, Todd JA, Vidal M, Wagner GP, Wang J, Weigel D, Young R (2010) Ten years of genetics and genomics: what have we achieved and where are we heading? Nature reviews Genetics 11 (10):723-733. doi:10.1038/nrg2878

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Ahman IM, Kazachkova NI, Kamnert IM, Hagberg PA, Dayteg CI, Eklund GM, Meijer LJO, Ekbom B (2006) Characterisation of transgenic oilseed rape expressing pea lectin in anthers for improved resistance to pollen beetle. Euphytica 151 (3):321-330. doi:10.1007/s10681-006-9152-1

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Lin F, Xue SL, Tian DG, Li CJ, Cao Y, Zhang ZZ, Zhang CQ, Ma ZQ (2008) Mapping chromosomal regions affecting flowering time in a spring wheat RIL population. Euphytica 164 (3):769-777. doi:10.1007/s10681-008-9724-3

Khlestkina EK, Giura A, Roeder MS, Boerner A (2009) A new gene controlling the flowering response to photoperiod in wheat. Euphytica 165 (3):579-585. doi:10.1007/s10681-008-9783-5

Heinemann AB, Dingkuhn M, Luquet D, Combres JC, Chapman S (2008) Characterization of drought stress environments for upland rice and maize in central Brazil. Euphytica 162 (3):395-410. doi:10.1007/s10681-007-9579-z

Blanc G, Charcosset A, Veyrieras J-B, Gallais A, Moreau L (2008) Marker-assisted selection efficiency in multiple connected populations: a simulation study based on the results of a QTL detection experiment in maize. Euphytica 161 (1-2):71-84. doi:10.1007/s10681-007-9607-z

Qin J, Yang R, Liu Z, Zhang Y, Jiang C, Li W, Li Y, Guan R, Chang R, Qiu L (2010) Location and transmission of QTL for multiple traits in the pedigree of soybean cultivars. Euphytica 173 (3):377-386. doi:10.1007/s10681-010-0122-2

Niemela T, Seppanen M, Jauhiainen L, Tulisalo U (2010) Transfer of the Kosena Rfk1 gene, required in hybrid seed production, from oilseed rape to turnip rape. Euphytica 175 (1):1-12. doi:10.1007/s10681-010-0171-6

Maqbool A, Shafiq S, Lake L (2010) Radiant frost tolerance in pulse crops-a review. Euphytica 172 (1):1-12. doi:10.1007/s10681-009-0031-4

Guo Y, McCarty JC, Jenkins JN, An C, Saha S (2009) Genetic detection of node of first fruiting branch in crosses of a cultivar with two exotic accessions of upland cotton. Euphytica 166 (3):317-329. doi:10.1007/s10681-008-9809-z

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Prasad PVV, Craufurd PQ, Summerfield RJ (1999) Sensitivity of peanut to timing of heat stress during reproductive development. Crop Sci 39 (5):1352-1357

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Walker DR, Walker AK, Wood ED, Talevera MEB, Fernandez FE, Rowan GB, Moots CK, Leitz RA, Owen PA, Baxter WE, Head JL, Boerma HR (2006) Gametic selection by glyphosate in soybean plants hemizygous for the CP4 EPSPS transgene. Crop Sci 46 (1):30-35. doi:10.2135/cropsci2004.0750 van Beem J, Mohler V, Lukman R, van Ginkel M, William M, Crossa J, Worland AJ (2005) Analysis of genetic factors influencing the developmental rate of globally important CIMMYT wheat cultivars. Crop Sci 45 (5):2113-2119. doi:10.2135/cropsci2004.0665 Takahashi R, Benitez ER, Funatsuki H, Ohnishi S (2005) Soybean maturity and pubescence color genes improve chilling tolerance. Crop Sci 45 (4):1387-1393. doi:10.2135/cropsci2004.0386

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Wooten DR, Livingston DP, III, Holland JB, Marshall DS, Murphy JP (2008) Quantitative trait loci and epistasis for crown freezing tolerance in the 'Kanota' x 'Ogle' hexaploid oat mapping population. Crop Sci 48 (1):149-157. doi:10.2135/cropsci2006.12.0793

White JW, Herndl M, Hunt LA, Payne TS, Hoogenboom G (2008) Simulation-based analysis of effects of Vrn and Ppd loci on flowering in wheat. Crop Sci 48 (2):678-687. doi:10.2135/cropsci2007.06.0318

Wang Y, Mu C, Hou Y, Li X (2008) Optimum harvest time of Vicia cracca in relation to high seed quality during pod development. Crop Sci 48 (2):709-715. doi:10.2135/cropsci2007.04.0211sc

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Udall JA, Wendel JF (2006) Polyploidy and crop improvement. Crop Sci 46:S3-S14. doi:10.2135/cropsci2006.07.0489tpg Larson SR, Wu X, Jones TA, Jensen KB, Chatterton NJ, Waldron BL, Robins JG, Bushman BS, Palazzo AJ (2006) Comparative mapping of growth habit, plant height, and flowering QTLs in two interspecific families of Leymus. Crop Sci 46 (6):2526-2539. doi:10.2135/cropsci2005.12.0472

Kumudini SV, Pallikonda PK, Steele C (2007) Photoperiod and e-genes influence the duration of the reproductive phase in soybean. Crop Sci 47 (4):1510-1517. doi:10.2135/cropsci2006.10.0662

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Wooten DR, Livingston DP, III, Lyerly HJ, Holland JB, Jellen EN, Marshall DS, Murphy JP (2009) Quantitative Trait Loci and Epistasis for Oat Winter-Hardiness Component Traits. Crop Sci 49 (6):1989-1998. doi:10.2135/cropsci2008.10.0612

Willenborg CJ, Luschei EC, Brule-Babel AL, Van Acker RC (2009) Flowering Phenology and Synchrony between Volunteer and Cropped Spring Wheat: Implications for Pollen- Mediated Gene Flow. Crop Sci 49 (3):1029-1039. doi:10.2135/cropsci2008.08.0502

Riedeman ES, Chandler MA, Tracy WF (2008) Divergent recurrent selection for vegetative phase change and effects on agronomic traits and corn borer resistance. Crop Sci 48 (5):1723-1731. doi:10.2135/cropsci2007.09.0511

Palaudelmas M, Mele E, Penas G, Pla M, Nadal A, Serra J, Salvia J, Messeguer J (2008) Sowing and Flowering Delays Can Be an Efficient Strategy to Improve Coexistence of Genetically Modified and Conventional Maize. Crop Sci 48 (6):2404-2413. doi:10.2135/cropsci2007.10.0585 de la Vega AJ, Chapman SC (2010) Mega-Environment Differences Affecting Genetic Progress for Yield and Relative Value of Component Traits. Crop Sci 50 (2):574-583. doi:10.2135/cropsci2009.04.0209

Cockram J, Norris C, O'Sullivan DM (2009) PCR-Based Markers Diagnostic for Spring and Winter Seasonal Growth Habit in Barley. Crop Sci 49 (2):403-410. doi:10.2135/cropsci2008.07.0398

Clark MD, Watkins E (2010) Seed Production Characteristics of Prairie Junegrass Germplasm Accessions. Crop Sci 50 (3):1057-1065. doi:10.2135/cropsci2009.05.0235

Borras L, Astini JP, Westgate ME, Severini AD (2009) Modeling Anthesis to Silking in Maize Using a Plant Biomass Framework. Crop Sci 49 (3):937-948. doi:10.2135/cropsci2008.05.0286

Singh M, Conner JA, Zeng YJ, Hanna WW, Johnson VE, Ozias-Akins P (2010) Characterization of Apomictic BC(7) and BC(8) Pearl Millet: Meiotic Chromosome Behavior and Construction of an ASGR-carrier Chromosome-specific Library. Crop Sci 50 (3):892-902. doi:10.2135/cropsci2009.05.0263 Rupitak Q, Stamp P, Jampatong S, Chowchong S, Messmer R (2010) The Temporal Dynamics of Kernel Set in Tropical Sweet Maize Determined by Visual Markers. Crop Sci 50 (6):2499-2505. doi:10.2135/cropsci2010.04.0196

Pinson SRM, Shahjahan AKM, Rush MC, Groth DE (2010) Bacterial Panicle Blight Resistance QTLs in Rice and Their Association with Other Disease Resistance Loci and Heading Date. Crop Sci 50 (4):1287-1297. doi:10.2135/cropsci2008.07.0447

Langhof M, Hommel B, Huesken A, Njontie C, Schiemann J, Wehling P, Wilhelm R, Ruehl G (2010) Coexistence in Maize: Isolation Distance in Dependence on Conventional Maize Field Depth and Separate Edge Harvest. Crop Sci 50 (4):1496-1508. doi:10.2135/cropsci2009.11.0641

Khanal R, Earl H, Lee EA, Lukens L (2011) The Genetic Architecture of Flowering Time and Related Traits in Two Early Flowering Maize Lines. Crop Sci 51 (1):146-156. doi:10.2135/cropsci2010.03.0177

Cober ER (2011) Long Juvenile Soybean Flowering Responses under Very Short Photoperiods. Crop Sci 51 (1):140-145. doi:10.2135/cropsci2010.05.0262

Cicchino M, Edreira JIR, Otegui ME (2010) Heat Stress during Late Vegetative Growth of Maize: Effects on Phenology and Assessment of Optimum Temperature. Crop Sci 50 (4):1431-1437. doi:10.2135/cropsci2009.07.0400

Blume CJ, Fei S-Z, Christians NE (2010) Field Evaluation of Reduced-Growth, Glyphosate-Resistant Kentucky Bluegrass in a Noncompetitive Setting. Crop Sci 50 (3):1048-1056. doi:10.2135/cropsci2009.05.0262

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Negeri AT, Coles ND, Holland JB, Balint-Kurti PJ (2011) Mapping QTL Controlling Southern Leaf Blight Resistance by Joint Analysis of Three Related Recombinant Inbred Line Populations. Crop Sci 51 (4):1571-1579. doi:10.2135/cropsci2010.12.0672

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Morgan PW (2011) Another Look at Interpreting Research to Manage the Effects of Ethylene in Ambient Air. Crop Sci 51 (3):903-913. doi:10.2135/cropsci2010.05.0280

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Araki E, Miura H, Sawada S (1999) Identification of genetic loci affecting amylose content and agronomic traits on chromosome 4A of wheat. Theor Appl Genet 98 (6- 7):977-984. doi:10.1007/s001220051158

Yin X, Stam P, Dourleijn CJ, Kropff MJ (1999) AFLP mapping of quantitative trait loci for yield-determining physiological characters in spring barley. Theor Appl Genet 99 (1- 2):244-253. doi:10.1007/s001220051230

Welz HG, Xia XC, Bassetti P, Melchinger AE, Lubberstedt T (1999) QTLs for resistance to Setosphaeria turcica in an early maturing DentxFlint maize population. Theor Appl Genet 99 (3-4):649-655. doi:10.1007/s001220051280

Welz HG, Schechert AW, Geiger HH (1999) Dynamic gene action at QTLs for resistance to Setosphaeria turcica in maize. Theor Appl Genet 98 (6-7):1036-1045. doi:10.1007/s001220051165 Sutka J, Galiba G, Vagujfalvi A, Gill BS, Snape JW (1999) Physical mapping of the Vrn- A1 and Fr1 genes on chromosome 5A of wheat using deletion lines. Theor Appl Genet 99 (1-2):199-202. doi:10.1007/s001220051225

Sari-Gorla M, Krajewski P, Di Fonzo N, Villa M, Frova C (1999) Genetic analysis of drought tolerance in maize by molecular markers. II. Plant height and flowering. Theor Appl Genet 99 (1-2):289-295. doi:10.1007/s001220051234

Craufurd PQ, Mahalakshmi V, Bidinger FR, Mukuru SZ, Chantereau J, Omanga PA, Qi A, Roberts EH, Ellis RH, Summerfield RJ, Hammer GL (1999) Adaptation of sorghum: characterisation of genotypic flowering responses to temperature and photoperiod. Theor Appl Genet 99 (5):900-911. doi:10.1007/s001220051311

Boskovic R, Tobutt KR, Duval H, Batlle I, Dicenta F, Vargas FJ (1999) A stylar ribonuclease assay to detect self-compatible seedlings in almond progenies. Theor Appl Genet 99 (5):800-810. doi:10.1007/s001220051299

Wang D, Karle R, Iezzoni AF (2000) QTL analysis of flower and fruit traits in sour cherry. Theor Appl Genet 100 (3-4):535-544. doi:10.1007/s001220050070

Kato K, Miura H, Sawada S (2000) Mapping QTLs controlling grain yield and its components on chromosome 5A of wheat. Theor Appl Genet 101 (7):1114-1121. doi:10.1007/s001220051587

Brancourt-Hulmel M (1999) Crop diagnosis and probe genotypes for interpreting genotype environment interaction in winter wheat trials. Theor Appl Genet 99 (6):1018- 1030. doi:10.1007/s001220051410

Holland JB, Portyanko VA, Hoffman DL, Lee M (2002) Genomic regions controlling vernalization and photoperiod responses in oat. Theor Appl Genet 105 (1):113-126. doi:10.1007/s00122-001-0845-5

Brancourt-Hulmel M, Lecomte C, Denis JB (2001) Choosing probe genotypes for the analysis of genotype-environment interaction in winter wheat trials. Theor Appl Genet 103 (2-3):371-382. doi:10.1007/s001220100573

Yadav RS, Bidinger FR, Hash CT, Yadav YP, Yadav OP, Bhatnagar SK, Howarth CJ (2003) Mapping and characterisation of QTL x E interactions for traits determining grain and stover yield in pearl millet. Theor Appl Genet 106 (3):512-520. doi:10.1007/s00122- 002-1081-3

Frary A, Doganlar S, Daunay MC, Tanksley SD (2003) QTL analysis of morphological traits in eggplant and implications for conservation of gene function during evolution of solanaceous species. Theor Appl Genet 107 (2):359-370. doi:10.1007/s00122-003-1257-5

Takeuchi Y, Lin SY, Sasaki T, Yano M (2003) Fine linkage mapping enables dissection of closely linked quantitative trait loci for seed dormancy and heading in rice. Theor Appl Genet 107 (7):1174-1180. doi:10.1007/s00122-003-1364-3

Peters JL, Cnops G, Neyt P, Zethof J, Cornelis K, Van Lijsebettens M, Gerats T (2004) An AFLP-based genome-wide mapping strategy. Theor Appl Genet 108 (2):321-327. doi:10.1007/s00122-003-1427-5 Hanocq E, Niarquin M, Heumez E, Rousset M, Le Gouis J (2004) Detection and mapping of QTL for earliness components in a bread wheat recombinant inbred lines population. Theor Appl Genet 110 (1):106-115. doi:10.1007/s00122-004-1799-1

Guillet-Claude C, Birolleau-Touchard C, Manicacci D, Fourmann M, Barraud S, Carret V, Martinant JP, Barriere Y (2004) Genetic diversity associated with variation in silage corn digestibility for three O-methyltransferase genes involved in lignin biosynthesis. Theor Appl Genet 110 (1):126-135. doi:10.1007/s00122-004-1808-4

Barrett B, Griffiths A, Schreiber M, Ellison N, Mercer C, Bouton J, Ong B, Forster J, Sawbridge T, Spangenberg G, Bryan G, Woodfield D (2004) A microsatellite map of white clover. Theor Appl Genet 109 (3):596-608. doi:10.1007/s00122-004-1658-0

Yue B, Xiong LZ, Xue WY, Xing YZ, Luo LJ, Xu CG (2005) Genetic analysis for drought resistance of rice at reproductive stage in field with different types of soil. Theor Appl Genet 111 (6):1127-1136. doi:10.1007/s00122-005-0040-1

Terefe D, Tatlioglu T (2005) Isolation of a partial sequence of a putative nucleotide sugar epimerase, which may involve in stamen development in cucumber (Cucumis sativus L.). Theor Appl Genet 111 (7):1300-1307. doi:10.1007/s00122-005-0058-4

Lin F, Xue SL, Zhang ZZ, Zhang CQ, Kong ZX, Yao GQ, Tian DG, Zhu HL, Li CJ, Cao Y, Wei JB, Luo QY, Ma ZQ (2006) Mapping QTL associated with resistance to Fusarium head blight in the Nanda2419 x Wangshuibai population. II: Type I resistance. Theor Appl Genet 112 (3):528-535. doi:10.1007/s00122-005-0156-3

Funatsuki H, Kawaguchi K, Matsuba S, Sato Y, Ishimoto M (2005) Mapping of QTL associated with chilling tolerance during reproductive growth in soybean. Theor Appl Genet 111 (5):851-861. doi:10.1007/s00122-005-0007-2

Zhao JY, Becker HC, Zhang DQ, Zhang YF, Ecke W (2006) Conditional QTL mapping of oil content in rapeseed with respect to protein content and traits related to plant development and grain yield. Theor Appl Genet 113 (1):33-38. doi:10.1007/s00122-006- 0267-5

Vargas M, van Eeuwijk FA, Crossa J, Ribaut JM (2006) Mapping QTLs and QTL x environment interaction for CIMMYT maize drought stress program using factorial regression and partial least squares methods. Theor Appl Genet 112 (6):1009-1023. doi:10.1007/s00122-005-0204-z

Valarik M, Linkiewicz A, Dubcovsky J (2006) A microcolinearity study at the earliness per se gene Eps-A(m)1 region reveals an ancient duplication that preceded the wheat-rice divergence. Theor Appl Genet 112 (5):945-957. doi:10.1007/s00122-005-0198-6

Aubert G, Morin J, Jacquin F, Loridon K, Quillet MC, Petit A, Rameau C, Lejeune- Henaut I, Huguet T, Burstin J (2006) Functional mapping in pea, as an aid to the candidate gene selection and for investigating synteny with the model legume Medicago truncatula. Theor Appl Genet 112 (6):1024-1041. doi:10.1007/s00122-005-0205-y

Stich B, Melchinger AE, Piepho H-P, Heckenberger M, Maurer HP, Reif JC (2006) A new test for family-based association mapping with inbred lines from plant breeding programs. Theor Appl Genet 113 (6):1121-1130. doi:10.1007/s00122-006-0372-5 Kuchel H, Hollamby G, Langridge P, Williams K, Jefferies SP (2006) Identification of genetic loci associated with ear-emergence in bread wheat. Theor Appl Genet 113 (6):1103-1112. doi:10.1007/s00122-006-0370-7

Tommasini L, Schnurbusch T, Fossati D, Mascher F, Keller B (2007) Association mapping of Stagonospora nodorum blotch resistance in modern European winter wheat varieties. Theor Appl Genet 115 (5):697-708. doi:10.1007/s00122-007-0601-6

Jines MP, Balint-Kurti P, Robertson-Hoyt LA, Molnar T, Holland JB, Goodman MM (2007) Mapping resistance to Southern rust in a tropical by temperate maize recombinant inbred topcross population. Theor Appl Genet 114 (4):659-667. doi:10.1007/s00122-006- 0466-0

Hanocq E, Laperche A, Jaminon O, Laine AL, Le Gouis J (2007) Most significant genome regions involved in the control of earliness traits in bread wheat, as revealed by QTL meta-analysis. Theor Appl Genet 114 (3):569-584. doi:10.1007/s00122-006-0459-z

Yahiaoui S, Igartua E, Moralejo M, Ramsay L, Molina-Cano JL, Ciudad FJ, Lasa JM, Gracia MP, Casas AM (2008) Patterns of genetic and eco-geographical diversity in Spanish barleys. Theor Appl Genet 116 (2):271-282. doi:10.1007/s00122-007-0665-3

Wang D, Nettleton D (2008) Combining classical trait and microarray data to dissect transcriptional regulation: a case study. Theor Appl Genet 116 (5):683-690. doi:10.1007/s00122-007-0701-3

Riddle NC, Birchler JA (2008) Comparative analysis of inbred and hybrid maize at the diploid and tetraploid levels. Theor Appl Genet 116 (4):563-576. doi:10.1007/s00122- 007-0691-1

Leipner J, Jompuk C, Camp K-H, Stamp P, Fracheboud Y (2008) QTL studies reveal little relevance of chilling-related seedling traits for yield in maize. Theor Appl Genet 116 (4):555-562. doi:10.1007/s00122-007-0690-2

Kuchel H, Williams KJ, Langridge P, Eagles HA, Jefferies SP (2007) Genetic dissection of grain yield in bread wheat. I. QTL analysis. Theor Appl Genet 115 (8):1029-1041. doi:10.1007/s00122-007-0629-7

Cockram J, Chiapparino E, Taylor SA, Stamati K, Donini P, Laurie DA, O'Sullivan DM (2007) Haplotype analysis of vernalization loci in European barley germplasm reveals novel VRN-H1 alleles and a predominant winter VRN-H1/VRN-H2 multi-locus haplotype. Theor Appl Genet 115 (7):993-1001. doi:10.1007/s00122-007-0626-x

Auzanneau J, Huyghe C, Julier B, Barre P (2007) Linkage disequilibrium in synthetic varieties of perennial ryegrass. Theor Appl Genet 115 (6):837-847. doi:10.1007/s00122- 007-0612-3

Wang R, Yu Y, Zhao J, Shi Y, Song Y, Wang T, Li Y (2008) Population structure and linkage disequilibrium of a mini core set of maize inbred lines in China. Theor Appl Genet 117 (7):1141-1153. doi:10.1007/s00122-008-0852-x

Villalta I, Reina-Sanchez A, Bolarin MC, Cuartero J, Belver A, Venema K, Carbonell EA, Asins MJ (2008) Genetic analysis of Na+ and K+ concentrations in leaf and stem as physiological components of salt tolerance in Tomato. Theor Appl Genet 116 (6):869-880. doi:10.1007/s00122-008-0720-8

Nonoue Y, Fujino K, Hirayama Y, Yamanouchi U, Lin SY, Yano M (2008) Detection of quantitative trait loci controlling extremely early heading in rice. Theor Appl Genet 116 (5):715-722. doi:10.1007/s00122-007-0704-0

Wang RX, Hai L, Zhang XY, You GX, Yan CS, Xiao SH (2009) QTL mapping for grain filling rate and yield-related traits in RILs of the Chinese winter wheat population Heshangmai X Yu8679. Theor Appl Genet 118 (2):313-325. doi:10.1007/s00122-008- 0901-5

Wang CL, Cheng FF, Sun ZH, Tang JH, Wu LC, Ku LX, Chen YH (2008) Genetic analysis of photoperiod sensitivity in a tropical by temperate maize recombinant inbred population using molecular markers. Theor Appl Genet 117 (7):1129-1139. doi:10.1007/s00122-008-0851-y

Stracke S, Haseneyer G, Veyrieras J-B, Geiger HH, Sauer S, Graner A, Piepho H-P (2009) Association mapping reveals gene action and interactions in the determination of flowering time in barley. Theor Appl Genet 118 (2):259-273. doi:10.1007/s00122-008- 0896-y

Schmalenbach I, Leon J, Pillen K (2009) Identification and verification of QTLs for agronomic traits using wild barley introgression lines. Theor Appl Genet 118 (3):483-497. doi:10.1007/s00122-008-0915-z

Sameri M, Nakamura S, Nair SK, Takeda K, Komatsuda T (2009) A quantitative trait locus for reduced culm internode length in barley segregates as a Mendelian gene. Theor Appl Genet 118 (4):643-652. doi:10.1007/s00122-008-0926-9

Olimpieri I, Mazzucato A (2008) Phenotypic and genetic characterization of the pistillate mutation in tomato. Theor Appl Genet 118 (1):151-163. doi:10.1007/s00122-008-0884-2

Liu G, Zeng R, Zhu H, Zhang Z, Ding X, Zhao F, Li W, Zhang G (2009) Dynamic expression of nine QTLs for tiller number detected with single segment substitution lines in rice. Theor Appl Genet 118 (3):443-453. doi:10.1007/s00122-008-0911-3

Chen Y, Carver BF, Wang S, Zhang F, Yan L (2009) Genetic loci associated with stem elongation and winter dormancy release in wheat. Theor Appl Genet 118 (5):881-889. doi:10.1007/s00122-008-0946-5

Zeng L, Meredith WR, Jr., Gutierrez OA, Boykin DL (2009) Identification of associations between SSR markers and fiber traits in an exotic germplasm derived from multiple crosses among Gossypium tetraploid species. Theor Appl Genet 119 (1):93-103. doi:10.1007/s00122-009-1020-7

Wang S, Carver B, Yan L (2009) Genetic loci in the photoperiod pathway interactively modulate reproductive development of winter wheat. Theor Appl Genet 118 (7):1339- 1349. doi:10.1007/s00122-009-0984-7

Griffiths S, Simmonds J, Leverington M, Wang Y, Fish L, Sayers L, Alibert L, Orford S, Wingen L, Herry L, Faure S, Laurie D, Bilham L, Snape J (2009) Meta-QTL analysis of the genetic control of ear emergence in elite European winter wheat germplasm. Theor Appl Genet 119 (3):383-395. doi:10.1007/s00122-009-1046-x

Graham J, Hackett CA, Smith K, Woodhead M, Hein I, McCallum S (2009) Mapping QTLs for developmental traits in raspberry from bud break to ripe fruit. Theor Appl Genet 118 (6):1143-1155. doi:10.1007/s00122-009-0969-6

Chen A, Reinheimer J, Brule-Babel A, Baumann U, Pallotta M, Fincher GB, Collins NC (2009) Genes and traits associated with chromosome 2H and 5H regions controlling sensitivity of reproductive tissues to frost in barley. Theor Appl Genet 118 (8):1465-1476. doi:10.1007/s00122-009-0995-4

Wang ML, Zhu C, Barkley NA, Chen Z, Erpelding JE, Murray SC, Tuinstra MR, Tesso T, Pederson GA, Yu J (2009) Genetic diversity and population structure analysis of accessions in the US historic sweet sorghum collection. Theor Appl Genet 120 (1):13-23. doi:10.1007/s00122-009-1155-6

Venuprasad R, Dalid CO, Del Valle M, Zhao D, Espiritu M, Cruz MTS, Amante M, Kumar A, Atlin GN (2009) Identification and characterization of large-effect quantitative trait loci for grain yield under lowland drought stress in rice using bulk-segregant analysis. Theor Appl Genet 120 (1):177-190. doi:10.1007/s00122-009-1168-1

Messmer R, Fracheboud Y, Baenziger M, Vargas M, Stamp P, Ribaut J-M (2009) Drought stress and tropical maize: QTL-by-environment interactions and stability of QTLs across environments for yield components and secondary traits. Theor Appl Genet 119 (5):913-930. doi:10.1007/s00122-009-1099-x

Li Q, Yang X, Bai G, Warburton ML, Mahuku G, Gore M, Dai J, Li J, Yan J (2010) Cloning and characterization of a putative GS3 ortholog involved in maize kernel development. Theor Appl Genet 120 (4):753-763. doi:10.1007/s00122-009-1196-x

Butron A, Chen YC, Rottinghaus GE, McMullen MD (2010) Genetic variation at bx1 controls DIMBOA content in maize. Theor Appl Genet 120 (4):721-734. doi:10.1007/s00122-009-1192-1

Yang X, Yan J, Shah T, Warburton ML, Li Q, Li L, Gao Y, Chai Y, Fu Z, Zhou Y, Xu S, Bai G, Meng Y, Zheng Y, Li J (2010) Genetic analysis and characterization of a new maize association mapping panel for quantitative trait loci dissection. Theor Appl Genet 121 (3):417-431. doi:10.1007/s00122-010-1320-y

Knox AK, Dhillon T, Cheng H, Tondelli A, Pecchioni N, Stockinger EJ (2010) CBF gene copy number variation at Frost Resistance-2 is associated with levels of freezing tolerance in temperate-climate cereals. Theor Appl Genet 121 (1):21-35. doi:10.1007/s00122-010- 1288-7

Herrmann D, Barre P, Santoni S, Julier B (2010) Association of a CONSTANS-LIKE gene to flowering and height in autotetraploid alfalfa. Theor Appl Genet 121 (5):865-876. doi:10.1007/s00122-010-1356-z

Fernandez-Silva I, Moreno E, Essafi A, Fergany M, Garcia-Mas J, Montserrat Martin- Hernandez A, Maria Alvarez J, Monforte AJ (2010) Shaping melons: agronomic and genetic characterization of QTLs that modify melon fruit morphology. Theor Appl Genet 121 (5):931-940. doi:10.1007/s00122-010-1361-2 de Alencar Figueiredo LF, Sine B, Chantereau J, Mestres C, Fliedel G, Rami JF, Glaszmann JC, Deu M, Courtois B (2010) Variability of grain quality in sorghum: association with polymorphism in Sh2, Bt2, SssI, Ae1, Wx and O2. Theor Appl Genet 121 (6):1171-1185. doi:10.1007/s00122-010-1380-z

Wang L, Wang A, Huang X, Zhao Q, Dong G, Qian Q, Sang T, Han B (2011) Mapping 49 quantitative trait loci at high resolution through sequencing-based genotyping of rice recombinant inbred lines. Theor Appl Genet 122 (2):327-340. doi:10.1007/s00122-010- 1449-8

Saito H, Okumoto Y, Yoshitake Y, Inoue H, Yuan Q, Teraishi M, Tsukiyama T, Nishida H, Tanisaka T (2011) Complete loss of photoperiodic response in the rice mutant line X61 is caused by deficiency of phytochrome chromophore biosynthesis gene. Theor Appl Genet 122 (1):109-118. doi:10.1007/s00122-010-1426-2

Mezmouk S, Dubreuil P, Bosio M, Decousset L, Charcosset A, Praud S, Mangin B (2011) Effect of population structure corrections on the results of association mapping tests in complex maize diversity panels. Theor Appl Genet 122 (6):1149-1160. doi:10.1007/s00122-010-1519-y

Li L, Paulo M-J, van Eeuwijk F, Gebhardt C (2010) Statistical epistasis between candidate gene alleles for complex tuber traits in an association mapping population of tetraploid potato. Theor Appl Genet 121 (7):1303-1310. doi:10.1007/s00122-010-1389-3

Kawamura K, Oyant LH-S, Crespel L, Thouroude T, Lalanne D, Foucher F (2011) Quantitative trait loci for flowering time and inflorescence architecture in rose. Theor Appl Genet 122 (4):661-675. doi:10.1007/s00122-010-1476-5

Hayashi K, Yasuda N, Fujita Y, Koizumi S, Yoshida H (2010) Identification of the blast resistance gene Pit in rice cultivars using functional markers. Theor Appl Genet 121 (7):1357-1367. doi:10.1007/s00122-010-1393-7

Gur A, Osorio S, Fridman E, Fernie AR, Zamir D (2010) hi2-1, A QTL which improves harvest index, earliness and alters metabolite accumulation of processing tomatoes. Theor Appl Genet 121 (8):1587-1599. doi:10.1007/s00122-010-1412-8

Ebana K, Shibaya T, Wu J, Matsubara K, Kanamori H, Yamane H, Yamanouchi U, Mizubayashi T, Kono I, Shomura A, Ito S, Ando T, Hori K, Matsumoto T, Yano M (2011) Uncovering of major genetic factors generating naturally occurring variation in heading date among Asian rice cultivars. Theor Appl Genet 122 (6):1199-1210. doi:10.1007/s00122-010-1524-1

Casas AM, Djemel A, Ciudad FJ, Yahiaoui S, Ponce LJ, Contreras-Moreira B, Pilar Gracia M, Lasa JM, Igartua E (2011) HvFT1 (VrnH3) drives latitudinal adaptation in Spanish barleys. Theor Appl Genet 122 (7):1293-1304. doi:10.1007/s00122-011-1531-x

Reif JC, Maurer HP, Korzun V, Ebmeyer E, Miedaner T, Wuerschum T (2011) Mapping QTLs with main and epistatic effects underlying grain yield and heading time in soft winter wheat. Theor Appl Genet 123 (2):283-292. doi:10.1007/s00122-011-1583-y

Malosetti M, van Eeuwijk FA, Boer MP, Casas AM, Elia M, Moralejo M, Bhat PR, Ramsay L, Molina-Cano J-L (2011) Gene and QTL detection in a three-way barley cross under selection by a mixed model with kinship information using SNPs. Theor Appl Genet 122 (8):1605-1616. doi:10.1007/s00122-011-1558-z

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Rattunde HFW (1998) Early-maturing dual-purpose sorghums: Agronomic trait variation and covariation among landraces. Plant Breed 117 (1):33-36. doi:10.1111/j.1439- 0523.1998.tb01444.x

Miura H, Nakagawa M, Worland AJ (1999) Control of ear emergence time by chromosome 3A of wheat. Plant Breed 118 (1):85-87. doi:10.1046/j.1439- 0523.1999.118001085.x

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Linke B, Nothnagel T, Borner T (1999) Morphological characterization of modified flower morphology of three novel alloplasmic male sterile carrot sources. Plant Breed 118 (6):543-548. doi:10.1046/j.1439-0523.1999.00402.x

Kulkarni RN (1999) Evidence for phenotypic assortative mating for flower colour in periwinkle. Plant Breed 118 (6):561-564. doi:10.1046/j.1439-0523.1999.00429.x

Kato K, Miura H, Sawada S (1999) Detection of an earliness per se quantitative trait locus in the proximal region of wheat chromosome 5AL. Plant Breed 118 (5):391-394. doi:10.1046/j.1439-0523.1999.00395.x

Karsai I, Meszaros K, Szucs P, Hayes PM, Lang L, Bedo Z (1999) Effects of loci determining photoperiod sensitivity (Ppd-H1) and vernalization response (Sh2) on agronomic traits in the 'Dicktoo' x 'Morex' barley mapping population. Plant Breed 118 (5):399-403. doi:10.1046/j.1439-0523.1999.00408.x

Karsai I, Meszaros K, Lang L, Hayes PM, Bedo Z (2001) Multivariate analysis of traits determining adaptation in cultivated barley. Plant Breed 120 (3):217-222

Gwanama C, Botha AM, Labuschagne MT (2001) Genetic effects and heterosis of flowering and fruit characteristics of tropical pumpkin. Plant Breed 120 (3):271-272. doi:10.1046/j.1439-0523.2001.00595.x

Company RSI, Felipe AJ, Aparisi JG (1999) A major gene for flowering time in almond. Plant Breed 118 (5):443-448. doi:10.1046/j.1439-0523.1999.00400.x

Buck-Sorlin GH, Borner A (2001) Pleiotropic effects of the ea(7) photoperiod response gene on the morphology and agronomic traits in barley. Plant Breed 120 (6):489-495. doi:10.1046/j.1439-0523.2001.00642.x

Ballester J, Company RSI, Arus P, de Vicente MC (2001) Genetic mapping of a major gene delaying blooming time in almond. Plant Breed 120 (3):268-270. doi:10.1046/j.1439-0523.2001.00604.x Whitechurch EM, Snape JW (2003) Developmental responses to vernalization in wheat deletion lines for chromosomes 5A and 5D. Plant Breed 122 (1):35-39. doi:10.1046/j.1439-0523.2003.00749.x

Murai M, Kc HB, Gima N (2003) Pleiotropic effect of the dwarfing gene d18-k on cool tolerance at booting stage under the genetic background of an extremely cool-tolerant line Norin-PL8 in rice. Plant Breed 122 (5):410-415. doi:10.1046/j.1439-0523.2003.00843.x

Laura M, Safaverdi G, Allavena A (2006) Androgenetic plants of Anemone coronaria derived through anther culture. Plant Breed 125 (6):629-634. doi:10.1111/j.1439- 0523.2006.01302.x

Kato K, Miura H, Sawada S (2002) Characterization of QEet.ocs-5A.1 a quantitative trait locus for ear emergence time on wheat chromosome 5AL. Plant Breed 121 (5):389-393. doi:10.1046/j.1439-0523.2002.00674.x

Hovav R, Upadhyaya KC, Beharav A, Abbo S (2003) Major flowering time gene and polygene effects on chickpea seed weight. Plant Breed 122 (6):539-541. doi:10.1111/j.1439-0523.2003.00895.x

Funatsuki H, Matsuba S, Kawaguchi K, Murakami T, Sato Y (2004) Methods for evaluation of soybean chilling tolerance at the reproductive stage under artificial climatic conditions. Plant Breed 123 (6):558-563. doi:10.1111/j.1439-0523.2004.01008.x

Dicenta F, Garcia-Gusano M, Ortega E, Martinez-Gomez P (2005) The possibilities of early selection of late-flowering almonds as a function of seed germination or leafing time of seedlings. Plant Breed 124 (3):305-309. doi:10.1111/j.1439-0523.2005.01090.x

Borner A, Buck-Sorlin GH, Hayes PM, Malyshev S, Korzun V (2002) Molecular mapping of major genes and quantitative trait loci determining flowering time in response to photoperiod in barley. Plant Breed 121 (2):129-132. doi:10.1046/j.1439- 0523.2002.00691.x

Anbessa Y, Warkentin T (2005) On improving crossing success in chickpea. Plant Breed 124 (6):608-609. doi:10.1111/j.1439-0523.2005.01157.x

Li W, Han Y, Zhang D, Yang M, Teng W, Jiang Z, Qiu L, Sun G (2008) Genetic diversity in soybean genotypes from north-eastern China and identification of candidate markers associated with maturity rating. Plant Breed 127 (5):494-500. doi:10.1111/j.1439- 0523.2008.01489.x

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