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Metagenomic Insights into the Fibrolytic Microbiome in Yak Rumen
Dai, Xin1; Zhu, Yaxin1; Luo, Yingfeng2; Song, Lei1; Liu, Di3; Liu, Li3; Chen, Furong1; Wang, Min1; Li, Jiabao1; Zeng, Xiaowei4; Dong, Zhiyang1; Hu, Songnian2; Li, Lingyan1; Xu, Jian4; Huang, Li1; Dong, Xiuzhu1
2012-07-13
Source PublicationPLOS ONE
Volume7Issue:7Pages:e40430
AbstractThe rumen hosts one of the most efficient microbial systems for degrading plant cell walls, yet the predominant cellulolytic proteins and fibrolytic mechanism(s) remain elusive. Here we investigated the cellulolytic microbiome of the yak rumen by using a combination of metagenome-based and bacterial artificial chromosome (BAC)-based functional screening approaches. Totally 223 fibrolytic BAC clones were pyrosequenced and 10,070 ORFs were identified. Among them 150 were annotated as the glycoside hydrolase (GH) genes for fibrolytic proteins, and the majority (69%) of them were clustered or linked with genes encoding related functions. Among the 35 fibrolytic contigs of >10 Kb in length, 25 were derived from Bacteroidetes and four from Firmicutes. Coverage analysis indicated that the fibrolytic genes on most Bacteroidetes-contigs were abundantly represented in the metagenomic sequences, and they were frequently linked with genes encoding SusC/SusD-type outer-membrane proteins. GH5, GH9, and GH10 cellulase/hemicellulase genes were predominant, but no GH48 exocellulase gene was found. Most (85%) of the cellulase and hemicellulase proteins possessed a signal peptide; only a few carried carbohydrate-binding modules, and no cellulosomal domains were detected. These findings suggest that the SucC/SucD-involving mechanism, instead of one based on cellulosomes or the free-enzyme system, serves a major role in lignocellulose degradation in yak rumen. Genes encoding an endoglucanase of a novel GH5 subfamily occurred frequently in the metagenome, and the recombinant proteins encoded by the genes displayed moderate Avicelase in addition to endoglucanase activities, suggesting their important contribution to lignocellulose degradation in the exocellulase-scarce rumen.
SubtypeArticle
Subject Area功能基因组
WOS HeadingsScience & Technology
DOI10.1371/journal.pone.0040430
WOS KeywordOUTER-MEMBRANE PROTEINS ; BACTEROIDES-THETAIOTAOMICRON ; GLYCOSIDE HYDROLASES ; BACTERIAL ; GENOME ; GENES ; DEGRADATION ; DIVERSITY ; DISCOVERY ; CELLULOSE
Indexed BySCI
Language英语
WOS Research AreaScience & Technology - Other Topics
WOS SubjectMultidisciplinary Sciences
WOS IDWOS:000306406700028
Citation statistics
Document Type期刊论文
Identifierhttp://ir.qibebt.ac.cn/handle/337004/1423
Collection单细胞中心组群
Affiliation1.Chinese Acad Sci, Inst Microbiol, State Key Lab Microbial Resources, Beijing, Peoples R China
2.Chinese Acad Sci, Beijing Inst Gen, CAS Key Lab Genome Sci & Informat, Beijing, Peoples R China
3.Chinese Acad Sci, Inst Microbiol, Bioinformat Ctr, Beijing, Peoples R China
4.Chinese Acad Sci, Qingdao Inst Bioenergy & Bioprocess Technol, Qingdao, Peoples R China
Recommended Citation
GB/T 7714
Dai, Xin,Zhu, Yaxin,Luo, Yingfeng,et al. Metagenomic Insights into the Fibrolytic Microbiome in Yak Rumen[J]. PLOS ONE,2012,7(7):e40430.
APA Dai, Xin.,Zhu, Yaxin.,Luo, Yingfeng.,Song, Lei.,Liu, Di.,...&Dong, Xiuzhu.(2012).Metagenomic Insights into the Fibrolytic Microbiome in Yak Rumen.PLOS ONE,7(7),e40430.
MLA Dai, Xin,et al."Metagenomic Insights into the Fibrolytic Microbiome in Yak Rumen".PLOS ONE 7.7(2012):e40430.
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