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Comparative genomics reveals insights into avian genome evolution and adaptation

by Pfenning, Andreas , Wilson, Richard K , Green, Richard E , Smith, Julia , Fjeldså, Jon , Warren, Wesley , Kim, Heebal , Schubert, Mikkel , Yang, Zhikai , Orlando, Ludovic , An, Na , da Fonseca, Rute R , Jarvis, Erich D , Bertelsen, Mads F , Burt, David W , Yang, Huanming , Graves, Gary R , Liu, Yang , Edwards, Scott V , Ganapathy, Ganeshkumar , Li, Shengbin , Li, Cai , Gilbert, M Thomas P , Ray, David A , Zhang, Yong , Xiong, Zijun , Wen, Ping , Wang, Guangbiao , Yang, Wei , Hoffmann, Federico G , Dixon, Andrew , Storz, Jay F , Khan, Imran , Gatesy, John , Wang, Zongji , Mourier, Tobias , Xiao, Jin , Wang, Jian , Li, Ning , Narayan, Jitendra , Romanov, Michael N , Li, Hui , Ryder, Oliver A , Wang, Jie , Li, Bo , O'Brien, Stephen J , Farré, Marta , Huang, Zhiyong , Hu, Haofu , Pan, Hailin , Lian, Jinmin , Håstad, Olle , Haussler, David , Zheng, Qiumei , Liu, Shiping , Sawyer, Roger H , Borges, Rui , Xiong, Yingqi , Zhang, Fang , Zeng, Yongli , Jin, Lijun , Zhan, Xiangjiang , Avian Genome Consortium , Whitney, Osceola , Alfaro-Núñez, Alonzo , Meredith, Robert W , Zhang, Pei , Johnson, Warren E , Zhou, Long , Wang, Bo , Larkin, Denis M , Antunes, Agostinho , Howard, Jason T , Fan, Yu , Braun, Edward L , Zhou,

in Adaptation / Adaptation, Physiological / Animals / Biochemistry and Molecular Biology / Biodiversity / Biokemi och molekylärbiologi / Biological Evolution / Biological Sciences / Biological Systematics / Biologisk systematik / Biologiska vetenskaper / Birds / Birds - classification / Birds - genetics / Birds - physiology / Conserved Sequence / convergent evolution / Deletion / Diet / Erosion / Evolution / Evolution, Molecular / Evolutionary / Evolutionary biology / Female / Finches / Flight, Animal / gene deletion / Genes / Genetic Variation / Genetics / Genetik / Genome / Genomes / Genomics / Life Sciences / lifestyle / Male / Mammals / Molecular Sequence Annotation / Natural Sciences / Naturvetenskap / nucleotide sequences / Nucleotides / Phylogeny / Reproduction - genetics / Reptiles / RESEARCH ARTICLE / Selection, Genetic / Sequence Analysis, DNA / Synteny / Vertebrates / Vision, Ocular - genetics / Vocalization, Animal / Waterfowl / Zoologi / Zoology

2014

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Comparative genomics reveals insights into avian genome evolution and adaptation

2014

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2014

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Journal Article

Comparative genomics reveals insights into avian genome evolution and adaptation

Pfenning, Andreas,

Wilson, Richard K,

Green, Richard E,

Smith, Julia,

Fjeldså, Jon,

Warren, Wesley,

Kim, Heebal,

Schubert, Mikkel,

Yang, Zhikai,

Orlando, Ludovic,

An, Na,

da Fonseca, Rute R,

Jarvis, Erich D,

Bertelsen, Mads F,

Burt, David W,

Yang, Huanming,

Graves, Gary R,

Liu, Yang,

Edwards, Scott V,

Ganapathy, Ganeshkumar,

Li, Shengbin,

Li, Cai,

Gilbert, M Thomas P,

Ray, David A,

Zhang, Yong,

Xiong, Zijun,

Wen, Ping,

Wang, Guangbiao,

Yang, Wei,

Hoffmann, Federico G,

Dixon, Andrew,

Storz, Jay F,

Khan, Imran,

Gatesy, John,

Wang, Zongji,

Mourier, Tobias,

Xiao, Jin,

Wang, Jian,

Li, Ning,

Narayan, Jitendra,

Romanov, Michael N,

Li, Hui,

Ryder, Oliver A,

Wang, Jie,

Li, Bo,

O'Brien, Stephen J,

Farré, Marta,

Huang, Zhiyong,

Hu, Haofu,

Pan, Hailin,

Lian, Jinmin,

Håstad, Olle,

Haussler, David,

Zheng, Qiumei,

Liu, Shiping,

Sawyer, Roger H,

Borges, Rui,

Xiong, Yingqi,

Zhang, Fang,

Zeng, Yongli,

Jin, Lijun,

Zhan, Xiangjiang,

Avian Genome Consortium,

Whitney, Osceola,

Alfaro-Núñez, Alonzo,

Meredith, Robert W,

Zhang, Pei,

Johnson, Warren E,

Zhou, Long,

Wang, Bo,

Larkin, Denis M,

Antunes, Agostinho,

Howard, Jason T,

Fan, Yu,

Braun, Edward L,

Zhou,

2014

Overview

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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Publisher

American Association for the Advancement of Science (AAAS),CCSD,American Association for the Advancement of Science,The American Association for the Advancement of Science

Subject

Adaptation

/ Adaptation, Physiological

/ Animals

/ Biochemistry and Molecular Biology

/ Biodiversity

/ Biokemi och molekylärbiologi

/ Biological Evolution

/ Biological Sciences

/ Biological Systematics

/ Biologisk systematik

/ Biologiska vetenskaper