Journal Article

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

Mourelatos, Z, The Roslin Institute ; Biotechnology and Biological Sciences Research Council (BBSRC), Siepel, A, Taylor, J, Yang, S.P, Searle, S.M.J, Pevzner, Pa, Warren, Wesley, Kaessmann, H, Miller, M.M, Fulton, L.A, Yang, S, Clifton, S.W, Kouranov, A, Cheng, Zhi-Ting, Law, A.S, Bye, J.M, Nhan, M.N, Mcpherson, J.D, Eyras, E, Tickle, C, Shiina, T, Birney, E, Berlin, S, Speed, D, Elnitski, L, Chatterji, S, Letunic, I, Randall-Maher, J, Nekrutenko, A, Stubbs, L, Crooijmans, R.P.M.A, Eswara, P, Furey, T.S, Bonfield, J.K, Radakrishnan, A, Torrents, D, Chiaromonte, F, Camara, Fode Moussa, Tempest, H.G, Ponting, C.P, Tyekucheva, S, Emerson, J.J, Guigo, Roderic, Wilson, S.A, He, J.B, Wong, G.K.S, Wallis, J.W, Goodstadt, L, Jacobbson, L, Bourque, G, Castellano, Sandra, Inoko, H, Harte, R.A, Romanov, M.N, Fronick, C, Waddington, D, Koriabine, M, Ucla, C, Ivarie, R, Croning, M.D.R, Tuzun, E, Wang, J, Mardis, E.R, Kerje, S, Hatzigeorgiou, A.G, Taylor, R.G, King, D.C, Fillon, Valerie, Smith, J, Rogers, J, Hillier, L.W, Nefedov, M, Department of Microbiology and Molecular Genetics ; Michigan State University [East Lansing] ; Michigan State

2004

Overview

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.

• Publisher: Nature Publishing Group,CCSD,Nature Publishing Group UK,Nature Publishing
• Subject: alcohol-dehydrogenase / Animals / Avian Proteins - genetics / Biologi / Biological and medical sciences / Biology / Birds / brown-norway rat / Cell and molecular biology / Cell- och molekylärbiologi / Chickens / Chickens - genetics / Chromosomes / Classical genetics, quantitative genetics, hybrids / Comparative Study / Conserved Sequence - genetics / Dinosaurs / DNA Transposable Elements - genetics / Evolution / Evolution, Molecular / Fundamental and applied biological sciences. Psychology / Gallus gallus / Gene Duplication / Gene expression / genes / Genes - genetics / Genetic diversity / Genetics / Genetics of eukaryotes. Biological and molecular evolution / Genetik / Genome / Genomics / Humanities and Social Sciences / Humans / Life Sciences / Long Interspersed Nucleotide Elements - genetics / major histocompatibility complex / mammalian evolution / Mammals / molecular sequence data / mouse genome / multidisciplinary / Multigene Family - genetics / Mutagenesis - genetics / NATURAL SCIENCES / NATURVETENSKAP / non-coding RNA genes / non-ltr retrotransposons / nucleotide sequences / olfactory receptor / phylogenetic analysis / Physical Chromosome Mapping / protein-coding genes / pseudogenes / Pseudogenes - genetics / recent segmental duplications / repetitive sequences / retrotransposons / Retroviridae - genetics / RNA, Untranslated - genetics / Science / Science (multidisciplinary) / Sequence Analysis, DNA / Short Interspersed Nucleotide Elements - genetics / Synteny / tissue-specific genes / transposons / Vertebrata / Vertebrates / Vertebrates - genetics