Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution

Hillier, LaDeana W and Miller, Webb and Birney, Ewan and Warren, Wesley and Hardison, Ross C and Ponting, Chris P and Bork, Peer and Burt, Peer and Groenen, Martien A M and Delany, Mary E and Dodgson, Jerry B and Chinwalla, Asif and Cliften, Paul F and Clifton, Sandra W and Delehaunty, Kimberly D and Fronick, Catrina and Fulton, Robert S and Graves, Tina A and Kremitzki, Colin and Layman, Dan and Magrini, Vincent and McPherson, John D and Miner, Tracie L and Minx, Patrick and Nash, William E and Nhan, Michael N and Nelson, Joanne O and Oddy, Lachlan G and Pohl, Craig S and Randall-Maher, Jennifer and Smith, Scott M and Wallis, John W and Yang, Shiaw-Pyng and Romanov, Michael N and Rondelli, Catherine M and Paton, Bob and Smith, Jacqueline and Morrice, David and Daniels, Laura and Tempest, Helen G and Robertson, Lindsay and Masabanda, Julio S and Griffin, Darren K. and Vignal, Alain and Fillon, Valerie and Jacobbson, Lina and Kerje, Susanne and Andersson, Leif and Crooijmans, Richard P M A and Aerts, Jan and van der Poel, Jan J and Ellegren, Hans and Caldwell, Randolph B and Hubbard, Simon J and Grafham, Darren V and Kierzek, Andrzej M and McLaren, Stuart R and Overton, Ian M and Arakawa, Hiroshi and Beattie, Kevin J and Bezzubov, Yuri and Boardman, Paul E and Bonfield, James K and Croning, Michael D R and Davies, Robert M and Francis, Matthew D and Humphray, Sean J and Scott, Carol E and Taylor, Ruth G and Tickle, Cheryll and Brown, William R A and Rogers, Jane and Buerstedde, Jean-Marie and Wilson, Stuart A and Stubbs, Lisa and Ovcharenko, Ivan and Gordon, Laurie and Lucas, Susan and Miller, Marcia M and Inoko, Hidetoshi and Shiina, Takashi and Kaufman, Jim and Salomonsen, Jan and Skjoedt, Karsten and Wong, Gane Ka-Shu and Wang, Jun and Liu, Bin and Wang, Jian and Yu, Jun and Yang, Huanming and Nefedov, Mikhail and Koriabine, Maxim and de Jong, Pieter J and Goodstadt, Leo and Webber, Caleb and Dickens, Nicholas J and Letunic, Ivica and Suyama, Mikita and Torrents, David and von Mering, Christian and Zdobnov, Evgeny M and Makova, Kateryna and Nekrutenko, Anton and Elnitski, Laura and Eswara, Pallavi and King, David C and Yang, Shan and Tyekucheva, Svitlana and Radakrishnan, Anusha and Harris, Robert S and Chiaromonte, Francesca and Taylor, James and He, Jianbin and Rijnkels, Monique and Griffiths-Jones, Sam and Ureta-Vidal, Abe and Hoffman, Michael M and Severin, Jessica and Searle, Stephen M J and Law, Andy S and Speed, David and Waddington, David and Cheng, Ze and Tuzun, Eray and Eichler, Evan and Bao, Zhirong and Flicek, Paul and Shteynberg, David D and Brent, Michael R and Bye, Jacqueline M and Huckle, Elizabeth J and Chatterjee, Sourav and Dewey, Colin and Pachter, Lior and Kouranov, Andrei and Mourelatos, Zissimos and Hatzigeorgiou, Artemis G and Paterson, Andrew H and Ivarie, Robert and Brandstrom, Mikael and Axelsson, Erik and Backström, Niclas and Berlin, Sofia and Webster, Matthew T and Pourquie, Olivier and Reymond, Alexandre and Ucla, Catherine and Antonarakis, Stylianos E and Long, Manyuan and Emerson, J J and Betran, Esther and Dupanloup, Isabelle and Kaessmann, Henrik and Hinrichs, Angie S and Bejerano, Gill and Furey, Terrence S and Harte, Rachel A and Raney, Brian and Siepel, Adam and Kent, W James and Haussler, David and Eyras, Eduardo and Castelo, Robert and Abril, Josep F and Castellano, Sergi and Camara, Francisco and Parra, Genis and Guigo, Roderic and Bourque, Guillaume and Tesler, Glenn and Pevzner, Pavel A. and Smit, Arian F. A. and Fulton, Lucinda A. and Mardis, Elaine R. and Wilson, Richard K. (2004) Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution. Nature, 432 (7018). pp. 695-716. ISSN 0028-0836. (doi: (Access to this publication is currently restricted. You may be able to access a copy if URLs are provided)

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We present here a draft genome sequence of the red jungle fowl, Gallus gallus. Because the chicken is a modern descendant of the dinosaurs and the first non-mammalian amniote to have its genome sequenced, the draft sequence of its genome--composed of approximately one billion base pairs of sequence and an estimated 20,000-23,000 genes--provides a new perspective on vertebrate genome evolution, while also improving the annotation of mammalian genomes. For example, the evolutionary distance between chicken and human provides high specificity in detecting functional elements, both non-coding and coding. Notably, many conserved non-coding sequences are far from genes and cannot be assigned to defined functional classes. In coding regions the evolutionary dynamics of protein domains and orthologous groups illustrate processes that distinguish the lineages leading to birds and mammals. The distinctive properties of avian microchromosomes, together with the inferred patterns of conserved synteny, provide additional insights into vertebrate chromosome architecture.

Item Type: Article
Subjects: Q Science > QH Natural history > QH426 Genetics
Divisions: Faculties > Sciences > School of Biosciences > Biomedical Research Group
Depositing User: M. Romanov
Date Deposited: 19 Dec 2007 17:58 UTC
Last Modified: 15 Aug 2018 08:57 UTC
Resource URI: (The current URI for this page, for reference purposes)
Romanov, Michael N:
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