Metagenomic analysis of the Rhinopithecus bieti fecal microbiome reveals a broad diversity of bacterial and glycoside hydrolase profiles related to lignocellulose degradationReport as inadecuate




Metagenomic analysis of the Rhinopithecus bieti fecal microbiome reveals a broad diversity of bacterial and glycoside hydrolase profiles related to lignocellulose degradation - Download this document for free, or read online. Document in PDF available to download.

BMC Genomics

, 16:174

First Online: 12 March 2015Received: 21 March 2014Accepted: 21 February 2015DOI: 10.1186-s12864-015-1378-7

Cite this article as: Xu, B., Xu, W., Li, J. et al. BMC Genomics 2015 16: 174. doi:10.1186-s12864-015-1378-7

Abstract

BackgroundThe animal gastrointestinal tract contains a complex community of microbes, whose composition ultimately reflects the co-evolution of microorganisms with their animal host and the diet adopted by the host. Although the importance of gut microbiota of humans has been well demonstrated, there is a paucity of research regarding non-human primates NHPs, especially herbivorous NHPs.

ResultsIn this study, an analysis of 97,942 pyrosequencing reads generated from Rhinopithecus bieti fecal DNA extracts was performed to help better understanding of the microbial diversity and functional capacity of the R. bieti gut microbiome. The taxonomic analysis of the metagenomic reads indicated that R. bieti fecal microbiomes were dominated by Firmicutes, Bacteroidetes, Proteobacteria and Actinobacteria phyla. The comparative analysis of taxonomic classification revealed that the metagenome of R. bieti was characterized by an overrepresentation of bacteria of phylum Fibrobacteres and Spirochaetes as compared with other animals. Primary functional categories were associated mainly with protein, carbohydrates, amino acids, DNA and RNA metabolism, cofactors, cell wall and capsule and membrane transport. Comparing glycoside hydrolase profiles of R. bieti with those of other animal revealed that the R. bieti microbiome was most closely related to cow rumen.

ConclusionsMetagenomic and functional analysis demonstrated that R. bieti possesses a broad diversity of bacteria and numerous glycoside hydrolases responsible for lignocellulosic biomass degradation which might reflect the adaptations associated with a diet rich in fibrous matter. These results would contribute to the limited body of NHPs metagenome studies and provide a unique genetic resource of plant cell wall degrading microbial enzymes. However, future studies on the metagenome sequencing of R. bieti regarding the effects of age, genetics, diet and environment on the composition and activity of the metagenomes are required.

KeywordsGastrointestinal microbiota Rhinopithecus bieti Metagenomics Lignocellulose degradation Pyrosequencing AbbreviationsNHPsNon-human primates

MG-RASTMetagenome Rapid Annotation using Subsystem Technology

QCQuality control

NCBINational Center for Biotechnology Information

SRAShort Read Archive

CAZyCarbohydrate-Active enzymes

GHGlycoside hydrolase

GTGlycosyl transferase

CBMCarbohydrate-binding modules

MDSMultidimensional scaling

ASPAmerican Society of Primatologists

Electronic supplementary materialThe online version of this article doi:10.1186-s12864-015-1378-7 contains supplementary material, which is available to authorized users.

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Author: Bo Xu - Weijiang Xu - Junjun Li - Liming Dai - Caiyun Xiong - Xianghua Tang - Yunjuan Yang - Yuelin Mu - Junpei Zhou - Ju

Source: https://link.springer.com/







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