Skip to main content
eScholarship
Open Access Publications from the University of California

UC Davis

UC Davis Previously Published Works bannerUC Davis

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

  • Author(s): Kern, Colin;
  • Wang, Ying;
  • Xu, Xiaoqin;
  • Pan, Zhangyuan;
  • Halstead, Michelle;
  • Chanthavixay, Ganrea;
  • Saelao, Perot;
  • Waters, Susan;
  • Xiang, Ruidong;
  • Chamberlain, Amanda;
  • Korf, Ian;
  • Delany, Mary E;
  • Cheng, Hans H;
  • Medrano, Juan F;
  • Van Eenennaam, Alison L;
  • Tuggle, Chris K;
  • Ernst, Catherine;
  • Flicek, Paul;
  • Quon, Gerald;
  • Ross, Pablo;
  • Zhou, Huaijun
  • et al.
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.

Many UC-authored scholarly publications are freely available on this site because of the UC's open access policies. Let us know how this access is important for you.

Main Content
For improved accessibility of PDF content, download the file to your device.
Current View