Systems biology analysis merging phenotype, metabolomic and genomic data identifies Non-SMC Condensin I Complex, Subunit G (NCAPG) and cellular maintenance processes as major contributors to genetic variability in Bovine feed efficiency

Philipp Widmann, Antonio Reverter, Rosemarie Weikard, Karsten Suhre, Harald M. Hammon, Elke Albrecht, Christa Kuehn

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

Feed efficiency is a paramount factor for livestock economy. Previous studies had indicated a substantial heritability of several feed efficiency traits. In our study, we investigated the genetic background of residual feed intake, a commonly used parameter of feed efficiency, in a cattle resource population generated from crossing dairy and beef cattle. Starting from a whole genome association analysis, we subsequently performed combined phenotype-metabolome-genome analysis taking a systems biology approach by inferring gene networks based on partial correlation and information theory approaches. Our data about biological processes enriched with genes from the feed efficiency network suggest that genetic variation in feed efficiency is driven by genetic modulation of basic processes relevant to general cellular functions. When looking at the predicted upstream regulators from the feed efficiency network, the Tumor Protein P53 (TP53) and Transforming Growth Factor beta 1 (TGFB1) genes stood out regarding significance of overlap and number of target molecules in the data set. These results further support the hypothesis that TP53 is a major upstream regulator for genetic variation of feed efficiency. Furthermore, our data revealed a significant effect of both, the Non-SMC Condensin I Complex, Subunit G (NCAPG) I442M (rs109570900) and the Growth/differentiation factor 8 (GDF8) Q204X (rs110344317) loci, on residual feed intake and feed conversion. For both loci, the growth promoting allele at the onset of puberty was associated with a negative, but favorable effect on residual feed intake. The elevated energy demand for increased growth triggered by the NCAPG 442M allele is obviously not fully compensated for by an increased efficiency in converting feed into body tissue. As a consequence, the individuals carrying the NCAPG 442M allele had an additional demand for energy uptake that is reflected by the association of the allele with increased daily energy intake as observed in our study.

Original languageEnglish
Article numbere0124574
JournalPLoS One
Volume10
Issue number4
DOIs
Publication statusPublished - 15 Apr 2015
Externally publishedYes

Fingerprint

Metabolomics
Systems Biology
cattle feeds
metabolomics
Merging
feed conversion
Alleles
Maintenance
Phenotype
genomics
phenotype
Biological Sciences
genetic variation
Genes
Myostatin
Information Theory
alleles
Biological Phenomena
Metabolome
feed intake

ASJC Scopus subject areas

  • Medicine(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Systems biology analysis merging phenotype, metabolomic and genomic data identifies Non-SMC Condensin I Complex, Subunit G (NCAPG) and cellular maintenance processes as major contributors to genetic variability in Bovine feed efficiency. / Widmann, Philipp; Reverter, Antonio; Weikard, Rosemarie; Suhre, Karsten; Hammon, Harald M.; Albrecht, Elke; Kuehn, Christa.

In: PLoS One, Vol. 10, No. 4, e0124574, 15.04.2015.

Research output: Contribution to journalArticle

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