Bacterial Niche-Specific Genome Expansion Is Coupled with Highly Frequent Gene Disruptions in Deep-Sea Sediments

doi:10.1371/journal.pone.0029149

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	Bacterial Niche-Specific Genome Expansion Is Coupled with Highly Frequent Gene Disruptions in Deep-Sea Sediments
	Wang, Yong 1,2; Yang, Jiang Ke 1; Lee, On On 1; Li, Tie Gang 3; Al-Suwailem, Abdulaziz 3; Danchin, Antoine 4,5; Qian, Pei-Yuan 1
	2011-12-21
发表期刊	PLOS ONE
卷号	6 期号:12
文章类型	Article
摘要	The complexity and dynamics of microbial metagenomes may be evaluated by genome size, gene duplication and the disruption rate between lineages. In this study, we pyrosequenced the metagenomes of microbes obtained from the brine and sediment of a deep-sea brine pool in the Red Sea to explore the possible genomic adaptations of the microbes in response to environmental changes. The microbes from the brine and sediments (both surface and deep layers) of the Atlantis II Deep brine pool had similar communities whereas the effective genome size varied from 7.4 Mb in the brine to more than 9 Mb in the sediment. This genome expansion in the sediment samples was due to gene duplication as evidenced by enrichment of the homologs. The duplicated genes were highly disrupted, on average by 47.6% and 70% for the surface and deep layers of the Atlantis II Deep sediment samples, respectively. The disruptive effects appeared to be mainly due to point mutations and frameshifts. In contrast, the homologs from the Atlantis II Deep brine sample were highly conserved and they maintained relatively small copy numbers. Likely, the adaptation of the microbes in the sediments was coupled with pseudogenizations and possibly functional diversifications of the paralogs in the expanded genomes. The maintenance of the pseudogenes in the large genomes is discussed.
DOI	10.1371/journal.pone.0029149
收录类别	SCI
语种	英语
WOS记录号	WOS:000299113600060
引用统计	被引频次：7[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/32926
专题	实验海洋生物学重点实验室
作者单位	1.Hong Kong Univ Sci & Technol, Div Life Sci, KAUST Global Collaborat Res, Clear Water Bay, Hong Kong, Peoples R China 2.Chinese Acad Sci, Inst Oceanog, Qingdao, Peoples R China 3.King Abdullah Univ Sci & Technol, Thuwal, Saudi Arabia 4.SAS, AMAbiot, Evry, France 5.CEA Genoscope, Evry, France
第一作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Wang, Yong,Yang, Jiang Ke,Lee, On On,et al. Bacterial Niche-Specific Genome Expansion Is Coupled with Highly Frequent Gene Disruptions in Deep-Sea Sediments[J]. PLOS ONE,2011,6(12).
APA	Wang, Yong.,Yang, Jiang Ke.,Lee, On On.,Li, Tie Gang.,Al-Suwailem, Abdulaziz.,...&Qian, Pei-Yuan.(2011).Bacterial Niche-Specific Genome Expansion Is Coupled with Highly Frequent Gene Disruptions in Deep-Sea Sediments.PLOS ONE,6(12).
MLA	Wang, Yong,et al."Bacterial Niche-Specific Genome Expansion Is Coupled with Highly Frequent Gene Disruptions in Deep-Sea Sediments".PLOS ONE 6.12(2011).

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