DOCSLIB.ORG

Population Genomics of a Baboon Hybrid Zone in Zambia Kenneth Lyu Chiou Washington University in St

Total Page：16

File Type：pdf, Size：1020Kb

Download full-text PDF Read full-text
Population Genomics of a Baboon Hybrid Zone in Zambia Kenneth Lyu Chiou Washington University in St Washington University in St. Louis Washington University Open Scholarship Arts & Sciences Electronic Theses and Dissertations Arts & Sciences Spring 5-15-2017 Population Genomics of a Baboon Hybrid Zone in Zambia Kenneth Lyu Chiou Washington University in St. Louis Follow this and additional works at: https://openscholarship.wustl.edu/art_sci_etds Part of the Biological and Physical Anthropology Commons, and the Genetics Commons Recommended Citation Chiou, Kenneth Lyu, "Population Genomics of a Baboon Hybrid Zone in Zambia" (2017). Arts & Sciences Electronic Theses and Dissertations. 1094. https://openscholarship.wustl.edu/art_sci_etds/1094 This Dissertation is brought to you for free and open access by the Arts & Sciences at Washington University Open Scholarship. It has been accepted for inclusion in Arts & Sciences Electronic Theses and Dissertations by an authorized administrator of Washington University Open Scholarship. For more information, please contact [email protected]. WASHINGTON UNIVERSITY IN ST. LOUIS Department of Anthropology Dissertation Examination Committee: Jane Phillips-Conroy, Chair Amy Bauernfeind Clifford Jolly Allan Larson Amanda Melin Population Genomics of a Baboon Hybrid Zone in Zambia By Kenneth L. Chiou A dissertation presented to The Graduate School of Washington University in partial fulfillment of the requirements for the degree of Doctor of Philosophy May 2017 St. Louis, Missouri © Kenneth L. Chiou Contents List of Figures v List of Tables vii Acknowledgments ix Abstract xiv 1 Hybrid Zones and Papio: A Review 1 Introduction . 1 Hybridization . 2 Study animals . 5 Evolution of genus Papio ................................. 7 Hybridization in Papio ................................... 15 Zambian Papio: diversity and distribution . 23 Relevance to Homo ..................................... 35 Study site . 40 Research summary . 44 Overview of upcoming chapters . 50 References . 52 2 Noninvasive Population Genomics from Feces 70 Introduction . 71 ii Results . ............................................ 73 Discussion . 79 Methods . 82 Samples . 82 DNA enrichment . 83 Library preparation and sequencing . 85 Analysis . 86 Acknowledgments . 88 References . 88 3 Population Signatures of Selection between Parental Species 93 Introduction . 93 Methods . 95 Samples . 95 DNA isolation and library preparation . 95 Sequence alignment and variant identification . 96 Inference of ancestry . 97 Estimation of differentiation . 98 Functional enrichment analysis . 99 Results and Discussion . 100 Conclusion . 108 Acknowledgments . 109 References . 109 4 Population Genomic Analysis of the Hybrid Zone 119 Introduction . 120 Methods . 122 Samples . 122 DNA isolation, library preparation and sequencing . 123 iii Detecting introgression . 124 Local adaptation analysis . 124 Genomic cline analysis . 126 Functional enrichment analysis . 128 Results and Discussion . 128 Hybrid zone structure . 129 Signatures of local adaptation and extreme introgression . 135 Gene function and biological pathway analysis . 137 JAK/STAT signaling pathway . 138 FGF and TLR signaling pathways . 140 Other pathways with aberrant introgression . 141 Outer dense fiber protein 2 . 141 Conclusion . 144 Acknowledgments . 146 References . 146 5 Summary and Conclusions 154 Appendices 162 A Supplementary Figures 163 B Supplementary Tables 176 C Supplementary Protocol 214 D Supplementary Note 221 iv List of Figures 1.1 Baboon distribution map . 7 1.2 Baboon mitochondrial tree . 9 1.3 Baboon nuclear tree . 10 1.4 Anubis baboons . 16 1.5 Hamadryas baboons . 17 1.6 Yellow baboons . 22 1.7 Zambian national parks . 24 1.8 Zambian rivers . 25 1.9 Zambian ecoregions . 26 1.10 Zambian baboon distribution map . 27 1.11 Grayfoot baboons . 32 1.12 Kinda baboons . 33 1.13 Kinda × grayfoot baboon hybrids . 36 1.14 Kafue National Park map . 40 1.15 Kafue National Park rivers map . 41 1.16 Kafue National Park geological map . 42 1.17 Kafue National Park vegetation map . 43 1.18 Lake Itezhi Tezhi map . 45 1.19 Challenges of baboon trapping . 48 1.20 Project track log . 49 1.21 Sightings and photos map . 50 v 1.22 Samples map ........................................ 51 2.1 FecalSeq overview . 75 2.2 Comparison of enrichment magnitude . 77 2.3 Concordance with blood-derived genotype data . 78 3.1 Ancestry assignment . 97 3.2 FST gene scan distribution . 100 4.1 Genomic cline parameters . 127 4.2 Ancestry clustering . 129 4.3 Ancestry results map . 130 4.4 Nuclear and sex-linked ancestry comparisons . 131 S1 Alignment rate by starting host percentage . 163 S2 RADtag quality control plots . 164 S3 Comparison of genome mapping percentages . 165 S4 ADMIXTURE cross validation results . 165 S5 Multidimensional scaling results . 166 S6 MDS by ADMIXTURE results . 167 S7.
Load more

Recommended publications
  • JVP 26(3) September 2006—ABSTRACTS
    Neoceti Symposium, Saturday 8:45 acid-prepared osteolepiforms Medoevia and Gogonasus has offered strong support for BODY SIZE AND CRYPTIC TROPHIC SEPARATION OF GENERALIZED Jarvik’s interpretation, but Eusthenopteron itself has not been reexamined in detail. PIERCE-FEEDING CETACEANS: THE ROLE OF FEEDING DIVERSITY DUR- Uncertainty has persisted about the relationship between the large endoskeletal “fenestra ING THE RISE OF THE NEOCETI endochoanalis” and the apparently much smaller choana, and about the occlusion of upper ADAM, Peter, Univ. of California, Los Angeles, Los Angeles, CA; JETT, Kristin, Univ. of and lower jaw fangs relative to the choana. California, Davis, Davis, CA; OLSON, Joshua, Univ. of California, Los Angeles, Los A CT scan investigation of a large skull of Eusthenopteron, carried out in collaboration Angeles, CA with University of Texas and Parc de Miguasha, offers an opportunity to image and digital- Marine mammals with homodont dentition and relatively little specialization of the feeding ly “dissect” a complete three-dimensional snout region. We find that a choana is indeed apparatus are often categorized as generalist eaters of squid and fish. However, analyses of present, somewhat narrower but otherwise similar to that described by Jarvik. It does not many modern ecosystems reveal the importance of body size in determining trophic parti- receive the anterior coronoid fang, which bites mesial to the edge of the dermopalatine and tioning and diversity among predators. We established relationships between body sizes of is received by a pit in that bone. The fenestra endochoanalis is partly floored by the vomer extant cetaceans and their prey in order to infer prey size and potential trophic separation of and the dermopalatine, restricting the choana to the lateral part of the fenestra.
    [Show full text]
  • Targets, Tactics, and Cooperation in the Play Fighting of Two Genera of Old World Monkeys (Mandrillus and Papio): Accounting for Similarities and Differences
    2019, 32 Heather M. Hill Editor Peer-reviewed Targets, Tactics, and Cooperation in the Play Fighting of Two Genera of Old World Monkeys (Mandrillus and Papio): Accounting for Similarities and Differences Kelly L. Kraus1, Vivien C. Pellis1, and Sergio M. Pellis1 1 Department of Neuroscience, University of Lethbridge, Canada Play fighting in many species involves partners competing to bite one another while avoiding being bitten. Species can differ in the body targets that are bitten and the tactics used to attack and defend those targets. However, even closely related species that attack and defend the same body target using the same tactics can differ markedly in how much the competitiveness of such interactions is mitigated by cooperation. A degree of cooperation is necessary to ensure that some turn-taking between the roles of attacker and defender occurs, as this is critical in preventing play fighting from escalating into serious fighting. In the present study, the dyadic play fighting of captive troops of 4 closely related species of Old World monkeys, 2 each from 2 genera of Papio and Mandrillus, was analyzed. All 4 species have a comparable social organization, are large bodied with considerable sexual dimorphism, and are mostly terrestrial. In all species, the target of biting is the same – the area encompassing the upper arm, shoulder, and side of the neck – and they have the same tactics of attack and defense. However, the Papio species exhibit more cooperation in their play than do the Mandrillus species, with the former using tactics that make biting easier to attain and that facilitate close bodily contact.
    [Show full text]
  • The Evolution of the Lepilemuridae-Cheirogaleidae Clade
    The evolution of the Lepilemuridae-Cheirogaleidae clade By Curswan Allan Andrews Submitted in fulfilment of the requirements for the degree of DOCTOR OF PHILOSOPHY In the Faculty of SCIENCE at the NELSON MANDELA UNIVERSITY Promoters Prof. Judith C. Masters Dr. Fabien G.S. Génin Prof. Graham I.H. Kerley April 2019 1 i Dedication To my mothers’ Cecelia Andrews & Johanna Cloete ii DECLARATION FULL NAME: Curswan Allan Andrews STUDENT NUMBER: 214372952 QUALIFICATION: Doctor of Philosophy DECLARATION: In accordance with Rule G5.6.3, I hereby declare that the above-mentioned thesis is my own work and that it has not previously been submitted for assessment to another University or for another qualification. Signature ________________ Curswan Andrews iii ABSTRACT The Lepilemuridae and the Cheirogaleidae, according to recent molecular reconstructions, share a more recent common ancestor than previously thought. Further phylogenetic reconstructions have indicated that body size evolution in this clade was marked by repeated dwarfing events that coincided with changes in the environment. I aimed to investigate the morphological implications of changes in body size within the Lepilemur-cheirogaleid clade, testing four predictions. Together with Dr. Couette, I collected data on the overall palate shape and predicted that shape is likely to be influenced by several factors including phylogeny, body size and diet. Geometric morphometric analyses revealed that, although a strong phylogenetic signal was detected, diet had the major effect on palate shape. In a similar vein, when examining the arterial circulation patterns in these taxa, I predicted that changes in body size would result in changes and possible reductions in arterial size, particularly the internal carotid artery (ICA) and stapedial artery (SA).
    [Show full text]
  • Eidesstattliche Erklärung
    ZENTRUM FÜR BIODIVERSITÄT UND NACHHALTIGE LANDNUTZUNG SEKTION BIODIVERSITÄT, ÖKOLOGIE UND NATURSCHUTZ CENTRE OF BIODIVERSITY AND SUSTAINABLE LAND USE SECTION: BIODIVERSITY, ECOLOGY AND NATURE CONSERVATION Mitochondrial genomes and the complex evolutionary history of the cercopithecine tribe Papionini Dissertation zur Erlangung des Doktorgrades der Mathematisch-Naturwissenschaftlichen Fakultäten der Georg-August-Universität zu Göttingen vorgelegt von Dipl. Biol. Rasmus Liedigk aus Westerstede Göttingen, September 2014 Referent: PD Dr. Christian Roos Korreferent: Prof. Dr. Eckhard Heymann Tag der mündlichen Prüfung: 19.9.2014 Table of content 1 General introduction .............................................................................................. 1 1.1 An introduction to phylogenetics ....................................................................... 1 1.2 Tribe Papionini – subfamily Cercopithecinae ..................................................... 3 1.2.1 Subtribe Papionina.................................................................................... 4 1.2.2 Subtribe Macacina, genus Macaca ........................................................... 5 1.3 Papionin fossils in Europe and Asia................................................................... 7 1.3.1 Fossils of Macaca ..................................................................................... 8 1.3.2 Fossils of Theropithecus ........................................................................... 9 1.4 The mitochondrial genome and its
    [Show full text]
  • IMPACTS of CLIMATE CHANGE on WATER AVAILABILITY in ZAMBIA: IMPLICATIONS for IRRIGATION DEVELOPMENT By
    Feed the Future Innovation Lab for Food Security Policy Research Paper 146 August 2019 IMPACTS OF CLIMATE CHANGE ON WATER AVAILABILITY IN ZAMBIA: IMPLICATIONS FOR IRRIGATION DEVELOPMENT By Byman H. Hamududu and Hambulo Ngoma Food Security Policy Research Papers This Research Paper series is designed to timely disseminate research and policy analytical outputs generated by the USAID funded Feed the Future Innovation Lab for Food Security Policy (FSP) and its Associate Awards. The FSP project is managed by the Food Security Group (FSG) of the Department of Agricultural, Food, and Resource Economics (AFRE) at Michigan State University (MSU), and implemented in partnership with the International Food Policy Research Institute (IFPRI) and the University of Pretoria (UP). Together, the MSU-IFPRI-UP consortium works with governments, researchers and private sector stakeholders in Feed the Future focus countries in Africa and Asia to increase agricultural productivity, improve dietary diversity and build greater resilience to challenges like climate change that affect livelihoods . The papers are aimed at researchers, policy makers, donor agencies, educators, and international development practitioners. Selected papers will be translated into French, Portuguese, or other languages. Copies of all FSP Research Papers and Policy Briefs are freely downloadable in pdf format from the following Web site: https://www.canr.msu.edu/fsp/publications/ Copies of all FSP papers and briefs are also submitted to the USAID Development Experience Clearing House (DEC) at: http://dec.usaid.gov/ ii AUTHORS: Hamududu is Senior Engineer, Water Balance, Norwegian Water Resources and Energy Directorate, Oslo, Norway and Ngoma is Research Fellow, Climate Change and Natural Resources, Indaba Agricultural Policy Research Institute (IAPRI), Lusaka, Zambia and Post-Doctoral Research Associate, Department of Agricultural, Food and Resource Economics, Michigan State University, East Lansing, MI.
    [Show full text]
  • Surface Model and Tomographic Archive of Fossil Primate and Other
    RESEARCH ARTICLE Surface Model and Tomographic Archive of Fossil Primate and Other Mammal Holotype and Paratype Specimens of the Ditsong National Museum of Natural History, Pretoria, South Africa Justin W. Adams1*, Angela Olah2,3, Matthew R. McCurry1,3, Stephany Potze4 a11111 1 Department of Anatomy and Developmental Biology, Faculty of Medicine, Nursing and Health Sciences, Monash University, Clayton, Victoria, Australia, 2 Department of Biological Sciences, Faculty of Sciences, Monash University, Clayton, Victoria, Australia, 3 Geosciences, Museum Victoria, Carlton, Victoria, Australia, 4 Plio-Pleistocene Palaeontology Section, Department of Vertebrates, Ditsong National Museum of Natural History, Pretoria, South Africa * [email protected] OPEN ACCESS Citation: Adams JW, Olah A, McCurry MR, Potze S (2015) Surface Model and Tomographic Archive of Abstract Fossil Primate and Other Mammal Holotype and Nearly a century of paleontological excavation and analysis from the cave deposits of the Paratype Specimens of the Ditsong National Museum of Natural History, Pretoria, South Africa. PLoS ONE Cradle of Humankind UNESCO World Heritage Site in northeastern South Africa underlies 10(10): e0139800. doi:10.1371/journal.pone.0139800 much of our understanding of the evolutionary history of hominins, other primates and other Editor: Brenda A Wilson, University of Illinois at mammal lineages in the late Pliocene and early Pleistocene of Africa. As one of few desig- Urbana-Champaign, UNITED STATES nated fossil repositories, the Plio-Pleistocene Palaeontology Section of the Ditsong National Received: January 29, 2015 Museum of Natural History (DNMNH; the former Transvaal Museum) curates much of the mammalian faunas recovered from the fossil-rich deposits of major South African hominin- Accepted: September 17, 2015 bearing localities, including the holotype and paratype specimens of many primate, carni- Published: October 6, 2015 vore, and other mammal species (Orders Primates, Carnivora, Artiodactyla, Eulipotyphla, Copyright: © 2015 Adams et al.
    [Show full text]
  • Regulatory Divergence of Transcript Isoforms in a Mammalian Model System
    RESEARCH ARTICLE Regulatory Divergence of Transcript Isoforms in a Mammalian Model System Sarah Leigh-Brown1☯, Angela Goncalves2,3☯, David Thybert2, Klara Stefflova4, Stephen Watt3, Paul Flicek2, Alvis Brazma2, John C. Marioni2*, Duncan T. Odom1,3* 1 University of Cambridge, Cancer Research UK - Cambridge Institute, Li Ka Shing Centre, Cambridge, United Kingdom, 2 European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom, 3 Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom, 4 California Institute of Technology, Division of Biology, Pasadena, California, United States of America ☯ These authors contributed equally to this work. * [email protected] (DTO); [email protected] (JCM) Abstract OPEN ACCESS Phenotypic differences between species are driven by changes in gene expression and, by extension, by modifications in the regulation of the transcriptome. Investigation of mamma- Citation: Leigh-Brown S, Goncalves A, Thybert D, Stefflova K, Watt S, Flicek P, et al. (2015) Regulatory lian transcriptome divergence has been restricted to analysis of bulk gene expression levels Divergence of Transcript Isoforms in a Mammalian and gene-internal splicing. Using allele-specific expression analysis in inter-strain hybrids Model System. PLoS ONE 10(9): e0137367. of Mus musculus, we determined the contribution of multiple cellular regulatory systems to doi:10.1371/journal.pone.0137367 transcriptome divergence, including: alternative promoter usage, transcription start site Editor: Barbara E. Stranger, University of Chicago, selection, cassette exon usage, alternative last exon usage, and alternative polyadenylation UNITED STATES site choice. Between mouse strains, a fifth of genes have variations in isoform usage that Received: June 9, 2015 contribute to transcriptomic changes, half of which alter encoded amino acid sequence.
    [Show full text]
  • Ethology and Ecology of the Patas Monkey (Erythrocebus Patas) at Mt
    African Primates 9:35-44 (2014)/ 35 Ethology and Ecology of the Patas Monkey (Erythrocebus patas) at Mt. Assirik, Senegal Clifford J. Henty1 and William C. McGrew1,2 1Department of Psychology, University of Stirling, Stirling, Scotland, UK 2Department of Archaeology & Anthropology, University of Cambridge, England, UK Abstract: We report ecological and ethological data collected opportunistically and intermittently on unhabituated patas monkeys at Mt. Assirik, Senegal, over 44 months. Although unsystematic and preliminary, these data represent the most ever presented on far western populations of the West African subspecies (Erythrocebus patas patas). Patas monkeys at Assirik live in a largely natural mosaic ecosystem of grassland, open woodland and gallery (riverine) forest with a full range of mammalian predators and competitors but without domestic plants and animals. All sociecological variables measured fall within the range of patas monkeys studied elsewhere in East and Central Africa, but apparent nuanced variation could not be tested, given the lack of close-range, focal-sampled data. This awaits further study. Résumé: Des données écologiques et comportementales ont été récoltées de façon opportuniste et discontinue durant 44 mois sur les patas sauvages à Mont Assirik, Sénégal. Malgré leur nature préliminaire et non- systématique, ces données sont actuellement les plus nombreuses sur la sous-espèce d’Afrique occidentale (Erythrocebus patas patas). Les patas de Mont Assirik vivent au sein d’un écosystème constitué d’une mosaïque de savanes herbeuses et boisées avec des forêts galeries, en présence de nombreuses espèces de mammifères prédateurs et compétiteurs, mais en l’absence de toute plante ou animal domestique. Nos résultats montrent que les patas de Mont Assirik ressemblent à ceux d’Afrique de l’est et d’Afrique centrale de façon générale, mais des analyses approfondies des variables socio-écologiques requièrent des données systématiques sur des individus habitués à la présence des observateurs.
    [Show full text]
  • Stretching the Time Span of Hominin Evolution at Kromdraai
    G Model PALEVO-933; No. of Pages 13 ARTICLE IN PRESS C. R. Palevol xxx (2016) xxx–xxx Contents lists available at ScienceDirect Comptes Rendus Palevol www.sci encedirect.com Human Palaeontology and Prehistory Stretching the time span of hominin evolution at Kromdraai (Gauteng, South Africa): Recent discoveries Extension de la durée de l’évolution humaine à Kromdraai (Gauteng, Afrique du Sud) : découvertes récentes a,b,∗ b c,d,e José Braga , John Francis Thackeray , Laurent Bruxelles , a c,f Jean Dumoncel , Jean-Baptiste Fourvel a Computer-assisted Palaeoanthropology Team, UMR 5288 CNRS–Université Paul-Sabatier, Toulouse, France b Evolutionary Studies Institute, University of Witwatersrand, Johannesburg, South Africa c Laboratoire TRACES, UMR 5608 CNRS, Université Jean-Jaurès, Toulouse, France d School of Geography, Archaeology and Environmental Studies, University of the Witwatersrand, Johannesburg, South Africa e Institut national d’archéologie préventive, Nîmes, France f Department of Quaternary Palaeontology, National Museum, Bloemfontein, South Africa a b s t r a c t a r t i c l e i n f o Article history: The Plio-Pleistocene locality of Kromdraai B has yielded the type specimen of Paranthropus Received 27 December 2015 robustus, as well as 27 additional fossil hominin specimens. In a number of both cranial Accepted after revision 25 March 2016 and dental features, the states shown by the Kromdraai Paranthropus are more conser- Available online xxx vative when compared to the more derived conditions displayed by both South African conspecifics and the post-2.3 Ma eastern African Paranthropus boisei. Since 2014, we exca- Keywords: vated the earliest known infilling of the Kromdraai cave system in a previously unexplored Kromdraai area.
    [Show full text]
  • Reassessment of Olduvai Bed I Cercopithecoids: a New Biochronological and Biogeographical Link to the South African Fossil Record
    Journal of Human Evolution 92 (2016) 50e59 Contents lists available at ScienceDirect Journal of Human Evolution journal homepage: www.elsevier.com/locate/jhevol Reassessment of Olduvai Bed I cercopithecoids: A new biochronological and biogeographical link to the South African fossil record * Christopher C. Gilbert a, b, c, d, , Stephen R. Frost e, Eric Delson b, d, f, g, h a Department of Anthropology, Hunter College of the City University of New York, 695 Park Avenue, New York, NY 10065, USA b PhD Program in Anthropology, Graduate Center of the City University of New York, 365 Fifth Avenue, NY 10016, USA c PhD Program in Biology, Graduate Center of the City University of New York, 365 Fifth Avenue, NY 10016, USA d New York Consortium in Evolutionary Primatology, USA e Department of Anthropology, University of Oregon, Eugene, OR, 97403, USA f Department of Anthropology, Lehman College of the City University of New York, 250 Bedford Park Boulevard West, Bronx, NY 10468, USA g Department of Vertebrate Paleontology, American Museum of Natural History, Central Park West, New York, NY 10024, USA h Institut Catala de Paleontologia Miquel Crusafont, Universitat Autonoma de Barcelona, Edifici ICTA-ICP, Carrer de les Columnes s/n, Campus de la UAB, 08193 Cerdanyola del Valles, Barcelona, Spain article info abstract Article history: Fossil monkeys have long been used as important faunal elements in studies of African Plio-Pleistocene Received 13 September 2015 biochronology, particularly in the case of the South African karst cave sites. Cercopithecoid fossils have Accepted 6 December 2015 been known from Tanzania's Olduvai Gorge for nearly a century, with multiple taxa documented Available online xxx including Theropithecus oswaldi and Cercopithecoides kimeui, along with papionins and colobines less clearly attributable to species.
    [Show full text]
  • Primates of the Cantanhez Forest and the Cacine Basin, Guinea-Bissau
    ORYX VOL 30 NO 1 JANUARY 1996 Primates of the Cantanhez Forest and the Cacine Basin, Guinea-Bissau Spartaco Gippoliti and Giacomo Dell'Omo In a 4-week field study of the primates of Guinea-Bissau, a 10-day survey was carried out along the Cacine River and in the Cantanhez Forest to collect information about the presence of primates and other mammals. No biological information was available for these areas. The survey revealed the presence of at least seven primate species, four of which are included in the current IUCN Red List of Threatened Animals. Of particular interest was the West African chimpanzee Pan troglodytes verus. This was considered to be possibly extinct in Guinea-Bissau, but was found to be locally common. All primate species are particularly vulnerable because of uncontrolled exploitation of the forest, while hunting is responsible for the decline of game species in the area. Other rare species occur in the area and make the Cacine Basin and Cantanhez Forest a priority area for wildlife conservation at national and regional levels. Introduction status of Temminck's red colobus Procolobus badius temminckii and the common chim- Guinea-Bissau is a small country - 28,120 sq panzee Pan troglodytes. The latter was believed km - in coastal West Africa south of Senegal. to be extinct in Guinea-Bissau (Lee et ah, 1988; While mangroves predominate on the coast, Scott, 1992), but in February-March 1988, dur- lowland forests of the Guinea-Congolian/ ing a previous visit to Guinea-Bissau, one of Sudanian transition zone (White, 1983) still the authors (G.D.) collected evidence of chim- cover small areas of the administrative sectors panzee presence in the south of the country.
    [Show full text]
  • Supplementary Table S4. FGA Co-Expressed Gene List in LUAD
    Supplementary Table S4. FGA co-expressed gene list in LUAD tumors Symbol R Locus Description FGG 0.919 4q28 fibrinogen gamma chain FGL1 0.635 8p22 fibrinogen-like 1 SLC7A2 0.536 8p22 solute carrier family 7 (cationic amino acid transporter, y+ system), member 2 DUSP4 0.521 8p12-p11 dual specificity phosphatase 4 HAL 0.51 12q22-q24.1histidine ammonia-lyase PDE4D 0.499 5q12 phosphodiesterase 4D, cAMP-specific FURIN 0.497 15q26.1 furin (paired basic amino acid cleaving enzyme) CPS1 0.49 2q35 carbamoyl-phosphate synthase 1, mitochondrial TESC 0.478 12q24.22 tescalcin INHA 0.465 2q35 inhibin, alpha S100P 0.461 4p16 S100 calcium binding protein P VPS37A 0.447 8p22 vacuolar protein sorting 37 homolog A (S. cerevisiae) SLC16A14 0.447 2q36.3 solute carrier family 16, member 14 PPARGC1A 0.443 4p15.1 peroxisome proliferator-activated receptor gamma, coactivator 1 alpha SIK1 0.435 21q22.3 salt-inducible kinase 1 IRS2 0.434 13q34 insulin receptor substrate 2 RND1 0.433 12q12 Rho family GTPase 1 HGD 0.433 3q13.33 homogentisate 1,2-dioxygenase PTP4A1 0.432 6q12 protein tyrosine phosphatase type IVA, member 1 C8orf4 0.428 8p11.2 chromosome 8 open reading frame 4 DDC 0.427 7p12.2 dopa decarboxylase (aromatic L-amino acid decarboxylase) TACC2 0.427 10q26 transforming, acidic coiled-coil containing protein 2 MUC13 0.422 3q21.2 mucin 13, cell surface associated C5 0.412 9q33-q34 complement component 5 NR4A2 0.412 2q22-q23 nuclear receptor subfamily 4, group A, member 2 EYS 0.411 6q12 eyes shut homolog (Drosophila) GPX2 0.406 14q24.1 glutathione peroxidase
    [Show full text]