Authors

Perry W. Perry, University of Texas - Arlington
Daren C. Card, University of Texas - Arlington
Joel W. McGlothlin, Virginia Tech
Giulia I.M. Pasquesi, University of Texas - Arlington
Richard H. Adams, University of Texas - Arlington
Drew R. Schield, University of Texas - Arlington
Nicole R. Hales, University of Texas - Arlington
Andrew B. Corbin, University of Texas - Arlington
Jeffery P. Demuth, University of Texas - Arlington
Federico G. Hoffmann, Mississippi State University
Michael W. Vandewege, Temple Univesity
Ryan K. Schott, University of Toronto
Nihar Bhattacharyya, Univesity of Toronto
Belinda S.W. Chang, University of Toronto
Nicholas R. Casewell, Liverpool School of Tropical Medicine
Gareth Whiteley, Liverpool School of Tropical Medicine
Jacobo Reyes-Velasco, University of Texas - Arlington
Stephen P. Mackessy, University of Northern Colorado
Tony Gamble, Marquette UniversityFollow
Kenneth B. Storey, Carleton University
Kyle K. Biggar, Carleton University
Courtney N. Passow, Univesity of Minnesota - St. Paul
Chih-Horng Kuo, Academia Sinica
Suzanne E. McGaugh, University of Minnesota - St. Paul
Anne M. Bronikowski, Iowa State University
A.P. Jason De Konig, University of Calgary - Alberta
Scott V. Edwards, Harvard University
Michael E. Pfrender, Univesity of Notre Dame
Patrick Minx, Washington University School of Medicine
Edmund D. Brodie III, University of Virginia
Edmund D. Brodie Jr., Utah State Univesity
Wesley C. Warren, Washington University School of Medicine
Todd A. Castoe, University of Texas - Arlington

Document Type

Article

Language

eng

Publication Date

8-1-2018

Publisher

Oxford University Press

Source Publication

Genome Biology and Evolution

Source ISSN

1759-6653

Abstract

Colubridae represents the most phenotypically diverse and speciose family of snakes, yet no well-assembled and annotated genome exists for this lineage. Here, we report and analyze the genome of the garter snake, Thamnophis sirtalis, a colubrid snake that is an important model species for research in evolutionary biology, physiology, genomics, behavior, and the evolution of toxin resistance. Using the garter snake genome, we show how snakes have evolved numerous adaptations for sensing and securing prey, and identify features of snake genome structure that provide insight into the evolution of amniote genomes. Analyses of the garter snake and other squamate reptile genomes highlight shifts in repeat element abundance and expansion within snakes, uncover evidence of genes under positive selection, and provide revised neutral substitution rate estimates for squamates. Our identification of Z and W sex chromosome-specific scaffolds provides evidence for multiple origins of sex chromosome systems in snakes and demonstrates the value of this genome for studying sex chromosome evolution. Analysis of gene duplication and loss in visual and olfactory gene families supports a dim-light ancestral condition in snakes and indicates that olfactory receptor repertoires underwent an expansion early in snake evolution. Additionally, we provide some of the first links between secreted venom proteins, the genes that encode them, and their evolutionary origins in a rear-fanged colubrid snake, together with new genomic insight into the coevolutionary arms race between garter snakes and highly toxic newt prey that led to toxin resistance in garter snakes.

Comments

Published version. Genome Biology and Evolution, Vol. 10 No. 8 (August 2018): 2110-2129. DOI. © 2018 Oxford University Press. Used with permission. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

Creative Commons License

Creative Commons Attribution-Noncommercial 4.0 License
This work is licensed under a Creative Commons Attribution-Noncommercial 4.0 License

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