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海洋细菌格氏菌属的比较基因组学揭示了其高度的基因组多样性和适应寒冷的基因组特征。

Comparative genomics of the marine bacterial genus Glaciecola reveals the high degree of genomic diversity and genomic characteristic for cold adaptation.

作者信息

Qin Qi-Long, Xie Bin-Bin, Yu Yong, Shu Yan-Li, Rong Jin-Cheng, Zhang Yan-Jiao, Zhao Dian-Li, Chen Xiu-Lan, Zhang Xi-Ying, Chen Bo, Zhou Bai-Cheng, Zhang Yu-Zhong

出版信息

Environ Microbiol. 2014 Jun;16(6):1642-53. doi: 10.1111/1462-2920.12318.

DOI:10.1111/1462-2920.12318
PMID:25009843
Abstract

To what extent the genomes of different species belonging to one genus can be diverse and the relationship between genomic differentiation and environmental factor remain unclear for oceanic bacteria. With many new bacterial genera and species being isolated from marine environments, this question warrants attention. In this study, we sequenced all the type strains of the published species of Glaciecola, a recently defined cold-adapted genus with species from diverse marine locations, to study the genomic diversity and cold-adaptation strategy in this genus.The genome size diverged widely from 3.08 to 5.96 Mb, which can be explained by massive gene gain and loss events. Horizontal gene transfer and new gene emergence contributed substantially to the genome size expansion. The genus Glaciecola had an open pan-genome. Comparative genomic research indicated that species of the genus Glaciecola had high diversity in genome size, gene content and genetic relatedness. This may be prevalent in marine bacterial genera considering the dynamic and complex environments of the ocean. Species of Glaciecola had some common genomic features related to cold adaptation, which enable them to thrive and play a role in biogeochemical cycle in the cold marine environments.

摘要

对于海洋细菌而言,同一属内不同物种的基因组在多大程度上存在差异,以及基因组分化与环境因素之间的关系仍不明确。随着许多新的细菌属和物种从海洋环境中分离出来,这个问题值得关注。在本研究中,我们对Glaciecola属已发表物种的所有模式菌株进行了测序,该属是最近定义的一个适应寒冷的属,其物种来自不同的海洋区域,以研究该属的基因组多样性和冷适应策略。基因组大小从3.08 Mb到5.96 Mb差异很大,这可以通过大量的基因得失事件来解释。水平基因转移和新基因出现对基因组大小的扩展有很大贡献。Glaciecola属具有开放的泛基因组。比较基因组研究表明,Glaciecola属的物种在基因组大小、基因含量和遗传相关性方面具有高度多样性。考虑到海洋动态和复杂的环境,这在海洋细菌属中可能很普遍。Glaciecola属的物种具有一些与冷适应相关的共同基因组特征,这使它们能够在寒冷的海洋环境中茁壮成长并在生物地球化学循环中发挥作用。

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