Wednesday, June 15, 2016

BIF 2016: Gene set enrichment analysis for feed efficiency in beef cattle

Holly Neibergs
Washington State University

Neibergs lead an effort to identify key genes within the network of genes that influence feed efficiency differences.

In this analysis they analyzed over 700,000 DNA variants in about 800 Hereford steers. For these Hereford steers they calculated the residual feed intake. Residual feed intake is how much the observed feed intake differs from the expected feed intake based on average daily gain and body weight. For over 19,000 genes, they identified the DNA marker within 8,000 base pairs of the gene that had the largest effect. These effects were assigned as the effect for that gene. They could then analyze networks of genes to look for gene networks that were significantly involved in feed efficiency differences.

Gene networks involved in cell division, including cytoskeleton organization, influenced differences in feed efficiency. There were also genes involved in the formation and regulation of peroxisomes found to influence feed efficiency. The peroxisome is involved with cellular transport and catabolism. they work on removing free radicals and maintaining lipid homeostatis.


FluorescentCells.jpg
By http://rsb.info.nih.gov/ij/images/, Public Domain, https://commons.wikimedia.org/w/index.php?curid=655748
Components of cytoskeleton are labeled by red and green strains.


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