Comparative genomics reveals insights into avian genome evolution and adaptation

Authors

• Guojie Zhang, Beijing Genomics Institute (BGI)–ShenzhenFollow
• Cai Li, Beijing Genomics Institute (BGI)–Shenzhen
• Qiye Li, Beijing Genomics Institute (BGI)–Shenzhen
• Bo Li, Beijing Genomics Institute (BGI)–Shenzhen
• Dennis M. Larkin, Royal Veterinary College, University of London
• Chul Lee, Seoul National University, Korea
• Jay F. Storz, University of Nebraska-LincolnFollow
• Agostinho Antunes, Universidade do Porto, Portugal
• Matthew J. Greenwold, University of South Carolina - Columbia
• Robert W. Meredith, Montclair State University
• Anders Ödeen, Uppsala University, Sweden
• Jie Cui, The University of Sydney, Australia
• Qi Zhou, University of California, Berkeley
• Luohao Xu, Wuhan University, China
• Hailin Pan, Beijing Genomics Institute (BGI)–Shenzhen
• Zongji Wang, South China University of Technology, Guangzhou
• Lijun Jin, Beijing Genomics Institute (BGI)–Shenzhen
• Pei Zhang, Beijing Genomics Institute (BGI)–Shenzhen
• Haofu Hu, Beijing Genomics Institute (BGI)–Shenzhen
• Wei Yang, Beijing Genomics Institute (BGI)–Shenzhen
• Jiang Hu, Beijing Genomics Institute (BGI)–Shenzhen
• Jin Xiao, Beijing Genomics Institute (BGI)–Shenzhen
• Zhikai Yang, Beijing Genomics Institute (BGI)–Shenzhen
• Yang Liu, Beijing Genomics Institute (BGI)–Shenzhen
• Qiaolin Xie, Beijing Genomics Institute (BGI)–Shenzhen
• Hao Yu, Beijing Genomics Institute (BGI)–Shenzhen
• Jinmin Lian, Beijing Genomics Institute (BGI)–Shenzhen
• Ping Wen, Beijing Genomics Institute (BGI)–Shenzhen
• Fang Zhang, Beijing Genomics Institute (BGI)–Shenzhen
• Hui Li, Beijing Genomics Institute (BGI)–Shenzhen
• Yongli Zeng, Beijing Genomics Institute (BGI)–Shenzhen
• Zijun Xiong, Beijing Genomics Institute (BGI)–Shenzhen
• Shiping Liu, Beijing Genomics Institute (BGI)–Shenzhen
• Long Zhou, Beijing Genomics Institute (BGI)–Shenzhen
• Zhiyong Huang, Beijing Genomics Institute (BGI)–Shenzhen
• Na An, Beijing Genomics Institute (BGI)–Shenzhen
• Jie Wang, Beijing Genomics Institute (BGI)–Shenzhen
• Quimei Zheng, Beijing Genomics Institute (BGI)–Shenzhen
• Yingqi Xiong, Beijing Genomics Institute (BGI)–Shenzhen
• Guangbiao Wang, Beijing Genomics Institute (BGI)–Shenzhen
• Bo Wang, Beijing Genomics Institute (BGI)–Shenzhen
• Jingjing Wang, Beijing Genomics Institute (BGI)–Shenzhen
• Yu Fan, Kunming Institute of Zoology, China
• Rute R. da Fonseca, University of Copenhagen
• Alonzo Alfaro-Núñez, University of Copenhagen
• Mikkel Schubert, University of Copenhagen
• Ludovic Orlando, University of Copenhagen
• Tobias Mourier, University of Copenhagen
• Jason T. Howard, Duke University Medical Center, Durham
• Ganeshkumar Ganapathy, Duke University Medical Center, Durham
• Andreas Pfenning, Duke University Medical Center, Durham
• Osceola Whitney, Duke University Medical Center, Durham
• Miriam V. Rivas, Duke University Medical Center, Durham
• Erina Hara, Duke University Medical Center, Durham
• Julia Smith, Duke University Medical Center, Durham
• Marta Farré, Royal Veterinary College, University of London
• Jitendra Narayan, Aberystwyth University
• Gancho Slavov, Aberystwyth University
• Michael N. Romanov, University of Kent at Canterbury - U.K.
• Rui Borges, Universidade do Porto
• João Paulo Machado, Universidade do Porto
• Imran Khan, Universidade do Porto
• Mark S. Springer, University of California, Riverside
• John Gatesy, University of California, Riverside
• Federico G. Hoffmann, Mississippi State University
• Juan C. Opazo, Universidad Austral de Chile, Valdivia
• Olle Håstad, Swedish University of Agricultural Sciences
• Roger H. Sawyer, University of South Carolina - Columbia
• Heebal Kim, Seoul National University, Korea
• Kyu-Won Kim, Seoul National University, Korea
• Hyeon Jeong Kim, Cho and Kim Genomics, Seoul National University Research Park, Seoul
• Seoae Cho, Cho and Kim Genomics, Seoul National University Research Park, Seoul
• Ning Li, China Agricultural University, Beijing
• Yinhua Huang, China Agricultural University, Beijing
• Michael W. Bruford, Cardiff University, Wales
• Xiangjiang Zhan, Cardiff University, Wales
• Andrew Dixon, International Wildlife Consultants, Carmarthen, Wales
• Mads F. Bertelsen, Copenhagen Zoo, Denmark
• Elizabeth Derryberry, Tulane University, New Orleans
• Wesley Warren, Washington University, St. Louis
• Richard K. Wilson, Washington University, St. Louis
• Shengbin Li, Xi’an Jiaotong University, China
• David A. Ray, Mississippi State University
• Richard E. Green, University of California, Santa CruzFollow
• Stephen J. O'Brien, St. Petersburg State University, Russia
• Darren Griffin, University of Kent, England
• Warren E. Johnson, Smithsonian Conservation Biology Institute, National Zoological Park
• David Haussler, University of California, Santa Cruz
• Oliver A. Ryder, San Diego Zoo Institute for Conservation Research
• Eske Willerslev, Natural History Museum of Denmark, University of Copenhagen
• Gary R. Graves, National Museum of Natural History, Smithsonian Institution
• Per Alström, Swedish University of Agricultural Sciences
• Jon Fjeldså, Natural History Museum of Denmark, University of Copenhagen
• David P. Mindell, University of California, San Francisco
• Scott V. Edwards, Harvard University
• Edward L. Braun, University of Florida, Gainesville
• Carsten Rahbek, Natural History Museum of Denmark, University of Copenhagen
• David W. Burt, University of Edinburgh, Scotland
• Peter Houde, New Mexico State University
• Yong Zhang, Beijing Genomics Institute (BGI)–Shenzhen
• Huanming Yang, Beijing Genomics Institute (BGI)–Shenzhen
• Jian Wang, Beijing Genomics Institute (BGI)–Shenzhen
• Avian Genome Consortium, Avian Genome Consortium
• Erich D. Jarvis, Duke University Medical Center, DurhamFollow
• M. Thomas P. Gilbert, Natural History Museum of Denmark, University of CopenhagenFollow
• Jun Wang, Beijing Genomics Institute (BGI)–ShenzhenFollow

Document Type

Article

Date of this Version

12-2014

Citation

Published in Science 346:6215 (2014), pp. 1311-1320; doi: 10.1126/science.1251385

Comments

Copyright (c) 2014 AAAS. Used by permission.

Abstract

Birds are the most species-rich class of tetrapod vertebrates and have wide relevance across many research fields. We explored bird macroevolution using full genomes from 48 avian species representing all major extant clades. The avian genome is principally characterized by its constrained size, which predominantly arose because of lineage-specific erosion of repetitive elements, large segmental deletions, and gene loss. Avian genomes furthermore show a remarkably high degree of evolutionary stasis at the levels of nucleotide sequence, gene synteny, and chromosomal structure. Despite this pattern of conservation, we detected many non-neutral evolutionary changes in protein-coding genes and noncoding regions. These analyses reveal that pan-avian genomic diversity covaries with adaptations to different lifestyles and convergent evolution of traits.