Sequence, structural and expression divergence of duplicate genes in the bovine genome

Liao, Xiaoping, Bao, Hua, Meng, Yan, Plastow, Graham, Moore, Stephen and Stothard, Paul (2014) Sequence, structural and expression divergence of duplicate genes in the bovine genome. PLoS One, 9 7: e102868.1-e102868.7. doi:10.1371/journal.pone.0102868


Author Liao, Xiaoping
Bao, Hua
Meng, Yan
Plastow, Graham
Moore, Stephen
Stothard, Paul
Title Sequence, structural and expression divergence of duplicate genes in the bovine genome
Journal name PLoS One   Check publisher's open access policy
ISSN 1932-6203
Publication date 2014-07-23
Year available 2014
Sub-type Article (original research)
DOI 10.1371/journal.pone.0102868
Open Access Status DOI
Volume 9
Issue 7
Start page e102868.1
End page e102868.7
Total pages 7
Place of publication San Francisco, CA United States
Publisher Public Library of Science
Collection year 2015
Language eng
Abstract Gene duplication is a widespread phenomenon in genome evolution, and it has been proposed to serve as an engine of evolutionary innovation. In the present study, we performed the first comprehensive analysis of duplicate genes in the bovine genome. A total of 3131 putative duplicated gene pairs were identified, including 712 cattle-specific duplicate gene pairs unevenly distributed across the genome, which are significantly enriched for specific biological functions including immunity, growth, digestion, reproduction, embryonic development, inflammatory response, and defense response to bacterium. Around 97.1% (87.8%) of (cattle-specific) duplicate gene pairs were found to have distinct exon-intron structures. Analysis of gene expression by RNA-Seq and sequence divergence (synonymous or non-synonymous) revealed that expression divergence is correlated with sequence divergence, as has been previously observed in other species. This analysis also led to the identification of a subset of cattle-specific duplicate gene pairs exhibiting very high expression divergence. Interestingly, further investigation revealed a significant relationship between structural and expression divergence while controlling for the effect of synonymous sequence divergence. Together these results provide further insight into duplicate gene sequence and expression divergence in cattle, and their potential contributions to phenotypic divergence.
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Queensland Alliance for Agriculture and Food Innovation
Official 2015 Collection
 
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