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

L.W. Hillier, W. Miller, E. Birney, M.A.M. Groenen, R.P.M.A. Crooijmans, J. Aerts, J.J. van der Poel

Research output: Contribution to journalArticleAcademicpeer-review

1894 Citations (Scopus)

Abstract

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.
Original languageEnglish
Pages (from-to)695-716
JournalNature
Volume432
Issue number7018
DOIs
Publication statusPublished - 2004

Keywords

  • non-ltr retrotransposons
  • major histocompatibility complex
  • recent segmental duplications
  • tissue-specific genes
  • brown-norway rat
  • alcohol-dehydrogenase
  • mammalian evolution
  • olfactory receptor
  • mouse genome
  • phylogenetic analysis

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