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

Colin Kern, Ying Wang, Xiaoqin Xu, Zhangyuan Pan, Michelle Halstead, Ganrea Chanthavixay, Perot Saelao, Susan Waters, Ruidong Xiang, Amanda Chamberlain, Ian Korf, Mary E. Delany, Hans H. Cheng, Juan F. Medrano, Alison L. Eenennaam, Chris K. Tuggle, Catherine Ernst, Paul Flicek, Gerald Quon, Pablo Ross () and Huaijun Zhou ()
Additional contact information
Colin Kern: University of California, Davis
Ying Wang: University of California, Davis
Xiaoqin Xu: University of California, Davis
Zhangyuan Pan: University of California, Davis
Michelle Halstead: University of California, Davis
Ganrea Chanthavixay: University of California, Davis
Perot Saelao: University of California, Davis
Susan Waters: University of California, Davis
Ruidong Xiang: The University of Melbourne
Amanda Chamberlain: Centre for AgriBioscience
Ian Korf: University of California, Davis
Mary E. Delany: University of California, Davis
Hans H. Cheng: Avian Disease and Oncology Laboratory
Juan F. Medrano: University of California, Davis
Alison L. Eenennaam: University of California, Davis
Chris K. Tuggle: Iowa State University
Catherine Ernst: Michigan State University
Paul Flicek: European Bioinformatics Institute, Wellcome Genome Campus, Hinxton
Gerald Quon: University of California, David
Pablo Ross: University of California, Davis
Huaijun Zhou: University of California, Davis

Nature Communications, 2021, vol. 12, issue 1, 1-11

Abstract: 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.

Date: 2021
References: Add references at CitEc
Citations: View citations in EconPapers (3)

Downloads: (external link)
https://www.nature.com/articles/s41467-021-22100-8 Abstract (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-021-22100-8

Ordering information: This journal article can be ordered from
https://www.nature.com/ncomms/

DOI: 10.1038/s41467-021-22100-8

Access Statistics for this article

Nature Communications is currently edited by Nathalie Le Bot, Enda Bergin and Fiona Gillespie

More articles in Nature Communications from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().