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Snapshot of the Eukaryotic Gene Expression in Muskoxen Rumen—A Metatranscriptomic Approach

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Snapshot of the Eukaryotic Gene Expression in Muskoxen Rumen—A Metatranscriptomic Approach

Kelso, Janet and Qi, Meng and Wang, Pan and O'Toole, Nicholas and Barboza, Perry S. and Ungerfeld, Emilio and Leigh, Mary Beth and Selinger, L. Brent and Butler, Greg and Tsang, Adrian and McAllister, Tim A. and Forster, Robert J. (2011) Snapshot of the Eukaryotic Gene Expression in Muskoxen Rumen—A Metatranscriptomic Approach. PLoS ONE, 6 (5). e20521. ISSN 1932-6203

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Official URL: http://dx.doi.org/10.1371/journal.pone.0020521

Abstract

Background
Herbivores rely on digestive tract lignocellulolytic microorganisms, including bacteria, fungi and protozoa, to derive energy and carbon from plant cell wall polysaccharides. Culture independent metagenomic studies have been used to reveal the genetic content of the bacterial species within gut microbiomes. However, the nature of the genes encoded by eukaryotic protozoa and fungi within these environments has not been explored using metagenomic or metatranscriptomic approaches.

Methodology/Principal Findings
In this study, a metatranscriptomic approach was used to investigate the functional diversity of the eukaryotic microorganisms within the rumen of muskoxen (Ovibos moschatus), with a focus on plant cell wall degrading enzymes. Polyadenylated RNA (mRNA) was sequenced on the Illumina Genome Analyzer II system and 2.8 gigabases of sequences were obtained and 59129 contigs assembled. Plant cell wall degrading enzyme modules including glycoside hydrolases, carbohydrate esterases and polysaccharide lyases were identified from over 2500 contigs. These included a number of glycoside hydrolase family 6 (GH6), GH48 and swollenin modules, which have rarely been described in previous gut metagenomic studies.

Conclusions/Significance
The muskoxen rumen metatranscriptome demonstrates a much higher percentage of cellulase enzyme discovery and an 8.7x higher rate of total carbohydrate active enzyme discovery per gigabase of sequence than previous rumen metagenomes. This study provides a snapshot of eukaryotic gene expression in the muskoxen rumen, and identifies a number of candidate genes coding for potentially valuable lignocellulolytic enzymes.

Divisions:Concordia University > Faculty of Arts and Science > Biology
Item Type:Article
Refereed:Yes
Authors:Kelso, Janet and Qi, Meng and Wang, Pan and O'Toole, Nicholas and Barboza, Perry S. and Ungerfeld, Emilio and Leigh, Mary Beth and Selinger, L. Brent and Butler, Greg and Tsang, Adrian and McAllister, Tim A. and Forster, Robert J.
Journal or Publication:PLoS ONE
Date:31 May 2011
ID Code:7714
Deposited By:DANIELLE DENNIE
Deposited On:11 Jul 2011 10:24
Last Modified:11 Jul 2011 10:24
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