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globalchange > 过去全球变化的重建

DOI:	10.1371/journal.pone.0111626
论文题名:	Comparative Metagenomic Analysis of Coral Microbial Communities Using a Reference-Independent Approach
作者:	Camila Carlos; Daniel Bedo Assumpção Castro; Laura M. M. Ottoboni
刊名:	PLOS ONE
ISSN:	1932-6203
出版年:	2014
发表日期:	2014-11-7
卷:	9, 期:11
语种:	英语
英文关键词:	Corals ; Protein domains ; Sequence databases ; Chaperone proteins ; Metagenomics ; Secretion systems ; Nucleotide sequencing ; Sequence alignment
英文摘要:	By comparing the SEED and Pfam functional profiles of metagenomes of two Brazilian coral species with 29 datasets that are publicly available, we were able to identify some functions, such as protein secretion systems, that are overrepresented in the metagenomes of corals and may play a role in the establishment and maintenance of bacteria-coral associations. However, only a small percentage of the reads of these metagenomes could be annotated by these reference databases, which may lead to a strong bias in the comparative studies. For this reason, we have searched for identical sequences (99% of nucleotide identity) among these metagenomes in order to perform a reference-independent comparative analysis, and we were able to identify groups of microbial communities that may be under similar selective pressures. The identification of sequences shared among the metagenomes was found to be even better for the identification of groups of communities with similar niche requirements than the traditional analysis of functional profiles. This approach is not only helpful for the investigation of similarities between microbial communities with high proportion of unknown reads, but also enables an indirect overview of gene exchange between communities.
URL:	http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0111626&type=printable
Citation statistics:
资源类型:	期刊论文
标识符:	http://119.78.100.158/handle/2HF3EXSE/18497
Appears in Collections:	过去全球变化的重建影响、适应和脆弱性科学计划与规划气候变化与战略全球变化的国际研究计划气候减缓与适应气候变化事实与影响

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File Name/ File Size	Content Type	Version	Access	License
journal.pone.0111626.PDF（887KB）	期刊论文	作者接受稿	开放获取	CC BY-NC-SA	View Download

作者单位:

Center for Molecular Biology and Genetic Engineering (CBMEG), State University of Campinas – UNICAMP, Campinas, São Paulo, Brazil;Center for Molecular Biology and Genetic Engineering (CBMEG), State University of Campinas – UNICAMP, Campinas, São Paulo, Brazil;Center for Molecular Biology and Genetic Engineering (CBMEG), State University of Campinas – UNICAMP, Campinas, São Paulo, Brazil

Recommended Citation:

Camila Carlos,Daniel Bedo Assumpção Castro,Laura M. M. Ottoboni. Comparative Metagenomic Analysis of Coral Microbial Communities Using a Reference-Independent Approach[J]. PLOS ONE,2014-01-01,9(11)

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