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Comparative genomics reveals insights into avian genome evolution and adaptation

Guojie Zhang,Li Cai,Qiye Li,Bo Li,Denis M. Larkin,Chul Lee,Jay F. Storz,Agostinho Antunes,Matthew J. Greenwold,Robert W. Meredith,Anders Ödeen,Jie Cui,Qi Zhou,Luohao Xu,Hailin Pan,Zongji Wang,Lijun Jin,Pei Zhang,Haofu Hu,Wei Yang,Jiang Hu,Jin Xiao,Zhikai Yang,Yang Liu,Qiaolin Xie,Hao Yu,Jinmin Lian,Ping Wen,Fang Zhang,Hui Li,Yongli Zeng,Zijun Xiong,Shiping Liu,Long Zhang,Zhiyong Huang,Na An,Jie Wang,Qiumei Zheng,Yingqi Xiong,Guangbiao Wang,Bo Wang,Jingjing Wang,Yu Fan,Rute R. da Fonseca,Alonzo Alfaro‐Núñez,Mikkel Schubert,Ludovic Orlando,Tobias Mourier,Jason T. Howard,Ganeshkumar Ganapathy,Andreas R. Pfenning,Osceola Whitney,Miriam V. Rivas,Erina Hara,Julia Gage Smith,Marta Farré,Jitendra Narayan,Gancho Slavov,Michael N Romanov,Rui Borges,João Paulo Machado,Imran Khan,Mark S. Springer,John Gatesy,Federico G. Hoffmann,Juan C. Opazo,Olle Håstad,Roger H. Sawyer,Heebal Kim,Kyu‐Won Kim,Yang Soo Kim,Seoae Cho,Ning Li,Yinhua Huang,Michael William Bruford,Xiangjiang Zhan,Andrew Dixon,Mads F. Bertelsen,Elizabeth P. Derryberry,Wesley C. Warren,Richard K. Wilson,Shengbin Li,David A. Ray,Edward Green,Stephen J. O’Brien,Darren K. Griffin,Warren E. Johnson,David Haussler,Oliver A. Ryder,Eske Willerslev,Gary R. Graves,Per Alström,Jon Fjeldså,David P. Mindell,Scott V. Edwards,Edward L. Braun,Carsten Rahbek,David W. Burt,Peter Houde,Yong Zhang,Huanming Yang,Erich D. Jarvis,M. Thomas P. Gilbert,Jun Wang

Synteny

Biology

Genome

2014

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.

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“Comparative genomics reveals insights into avian genome evolution and adaptation” is a paper by Guojie Zhang Li Cai Qiye Li Bo Li Denis M. Larkin Chul Lee Jay F. Storz Agostinho Antunes Matthew J. Greenwold Robert W. Meredith Anders Ödeen Jie Cui Qi Zhou Luohao Xu Hailin Pan Zongji Wang Lijun Jin Pei Zhang Haofu Hu Wei Yang Jiang Hu Jin Xiao Zhikai Yang Yang Liu Qiaolin Xie Hao Yu Jinmin Lian Ping Wen Fang Zhang Hui Li Yongli Zeng Zijun Xiong Shiping Liu Long Zhang Zhiyong Huang Na An Jie Wang Qiumei Zheng Yingqi Xiong Guangbiao Wang Bo Wang Jingjing Wang Yu Fan Rute R. da Fonseca Alonzo Alfaro‐Núñez Mikkel Schubert Ludovic Orlando Tobias Mourier Jason T. Howard Ganeshkumar Ganapathy Andreas R. Pfenning Osceola Whitney Miriam V. Rivas Erina Hara Julia Gage Smith Marta Farré Jitendra Narayan Gancho Slavov Michael N Romanov Rui Borges João Paulo Machado Imran Khan Mark S. Springer John Gatesy Federico G. Hoffmann Juan C. Opazo Olle Håstad Roger H. Sawyer Heebal Kim Kyu‐Won Kim Yang Soo Kim Seoae Cho Ning Li Yinhua Huang Michael William Bruford Xiangjiang Zhan Andrew Dixon Mads F. Bertelsen Elizabeth P. Derryberry Wesley C. Warren Richard K. Wilson Shengbin Li David A. Ray Edward Green Stephen J. O’Brien Darren K. Griffin Warren E. Johnson David Haussler Oliver A. Ryder Eske Willerslev Gary R. Graves Per Alström Jon Fjeldså David P. Mindell Scott V. Edwards Edward L. Braun Carsten Rahbek David W. Burt Peter Houde Yong Zhang Huanming Yang Erich D. Jarvis M. Thomas P. Gilbert Jun Wang published in 2014. It has an Open Access status of “green”. You can read and download a PDF Full Text of this paper here.