Functional annotations of three domestic animal genomes provide vital resources for comparative and agricultural research.

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  • Additional Information
    • Source:
      Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
    • Publication Information:
      Original Publication: [London] : Nature Pub. Group
    • Subject Terms:
      Cattle/*genetics ; Chickens/*genetics ; Gene Expression Regulation/*genetics ; Genome/*genetics ; Regulatory Sequences, Nucleic Acid/*genetics ; Swine/*genetics ; Transcription Factors/*metabolism; Amino Acid Motifs ; Animals ; Animals, Domestic/genetics ; Chromatin Immunoprecipitation Sequencing ; Enhancer Elements, Genetic/genetics ; Epigenesis, Genetic ; Epigenomics ; Genome-Wide Association Study ; Mice ; Organ Specificity/genetics ; Phylogeny ; Polymorphism, Single Nucleotide ; Transcription Factors/genetics
    • Abstract:
      Gene regulatory elements are central drivers of phenotypic variation and thus of critical importance towards understanding the genetics of complex traits. The Functional Annotation of Animal Genomes consortium was formed to collaboratively annotate the functional elements in animal genomes, starting with domesticated animals. Here we present an expansive collection of datasets from eight diverse tissues in three important agricultural species: chicken (Gallus gallus), pig (Sus scrofa), and cattle (Bos taurus). Comparative analysis of these datasets and those from the human and mouse Encyclopedia of DNA Elements projects reveal that a core set of regulatory elements are functionally conserved independent of divergence between species, and that tissue-specific transcription factor occupancy at regulatory elements and their predicted target genes are also conserved. These datasets represent a unique opportunity for the emerging field of comparative epigenomics, as well as the agricultural research community, including species that are globally important food resources.
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    • Accession Number:
      0 (Transcription Factors)
    • Publication Date:
      Date Created: 20210324 Date Completed: 20210414 Latest Revision: 20240331
    • Publication Date:
      20240331
    • Accession Number:
      PMC7988148
    • Accession Number:
      10.1038/s41467-021-22100-8
    • Accession Number:
      33758196