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PMID: 19181843 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 106 ·No. 6 ·2009-02-10 ·Pages 1948-53

Brulc JM, Antonopoulos DA, Miller ME, Wilson MK, Yannarell AC, Dinsdale EA, Edwards RE, Frank ED, Emerson JB, Wacklin P, Coutinho PM, Henrissat B, Nelson KE, White BA

Abstract

The complex microbiome of the rumen functions as an effective system for the conversion of plant cell wall biomass to microbial protein, short chain fatty acids, and gases. As such, it provides a unique genetic resource for plant cell wall degrading microbial enzymes that could be used in the production of biofuels. The rumen and gastrointestinal tract harbor a dense and complex microbiome. To gain a greater understanding of the ecology and metabolic potential of this microbiome, we used comparative metagenomics (phylotype analysis and SEED subsystems-based annotations) to examine randomly sampled pyrosequence data from 3 fiber-adherent microbiomes and 1 pooled liquid sample (a mixture of the liquid microbiome fractions from the same bovine rumens). Even though the 3 animals were fed the same diet, the community structure, predicted phylotype, and metabolic potentials in the rumen were markedly different with respect to nutrient utilization. A comparison of the glycoside hydrolase and cellulosome functional genes revealed that in the rumen microbiome, initial colonization of fiber appears to be by organisms possessing enzymes that attack the easily available side chains of complex plant polysaccharides and not the more recalcitrant main chains, especially cellulose. Furthermore, when compared with the termite hindgut microbiome, there are fundamental differences in the glycoside hydrolase content that appear to be diet driven for either the bovine rumen (forages and legumes) or the termite hindgut (wood).

MeSH Terms
Animals Base Sequence Cattle Cellulosomes/genetics Diet Food Genomics/methods Glycoside Hydrolases/analysis,genetics Isoptera Metabolism Metabolomics/methods Metagenome Molecular Sequence Data Rumen
Chemicals
Glycoside Hydrolases
Authors & Affiliations
14 authors, click to expand affiliations / ORCID
Brulc Jennifer M
Department of Animal Sciences, University of Illinois, Urbana, IL 61801, USA.
Antonopoulos Dionysios A
Miller Margret E Berg
Wilson Melissa K
Yannarell Anthony C
Dinsdale Elizabeth A
Edwards Robert E
Frank Edward D
Emerson Joanne B
Wacklin Pirjo
Coutinho Pedro M
Henrissat Bernard
Nelson Karen E
White Bryan A
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
1091-6490
DOI
10.1073/pnas.0806191105
Published
2009-02-10
Epub
2009-00-30
Pages
1948-53
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC2633212
Subset
IM
Databases
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PubMed source DOI: 10.1073/pnas.0806191105 PMC Full Text View journal details
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