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基于基因组的分析揭示了该家族的分类学和多样性。

Genome-Based Analysis Reveals the Taxonomy and Diversity of the Family .

作者信息

Liu Yang, Lai Qiliang, Shao Zongze

机构信息

State Key Laboratory Breeding Base of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources, Key Laboratory of Marine Genetic Resources of Fujian Province, Third Institute of Oceanography, State Oceanic Administration, Xiamen, China.

Laboratory for Marine Biology and Biotechnology, Qingdao National Laboratory for Marine Science and Technology, Qingdao, China.

出版信息

Front Microbiol. 2018 Oct 11;9:2453. doi: 10.3389/fmicb.2018.02453. eCollection 2018.

Abstract

is a family of Gram-stain negative, mesophilic euryhalophiles. To provide a robust framework for the evolutionary and taxonomic relationships of bacteria of this family, we compared herein the genomes of 36 type strains and 43 non-type strains using 16S rRNA gene sequences, core genome based 78 single-copy orthologous proteins, digital DNA-DNA hybridization and average nucleotide identity (ANI) estimation. The 79 bacteria of this family were consistently divided into taxon I, taxon II, and taxon III corresponding to the three genera , and , which contained 13 putative new genospecies in addition to 35 well-defined species represented by each type strain. Furthermore, genetic diversity of this family was evident at the genus- and species levels, and exceeded that which is defined currently by the named species. In view of multiple genotypic characteristics clearly distinct from the other two genera, we propose reinstating the genus as a monophyletic taxon. Taken together, this is the first genome-based study of the taxonomy and diversity of bacteria within the family , and will contribute to further insights into microbial evolution and adaptation to saline environments.

摘要

是一个革兰氏染色阴性、嗜温广盐菌的家族。为了为该家族细菌的进化和分类关系提供一个强大的框架,我们在此使用16S rRNA基因序列、基于核心基因组的78个单拷贝直系同源蛋白、数字DNA-DNA杂交和平均核苷酸同一性(ANI)估计,比较了36个模式菌株和43个非模式菌株的基因组。该家族的79种细菌被一致分为对应于三个属的分类群I、分类群II和分类群III,除了由每个模式菌株代表的35个明确界定的物种外,还包含13个推定的新基因型物种。此外,该家族的遗传多样性在属和种水平上都很明显,并且超过了目前由命名物种定义的范围。鉴于多个基因型特征与其他两个属明显不同,我们建议将属恢复为一个单系分类群。综上所述,这是首次基于基因组对该家族细菌的分类学和多样性进行的研究,将有助于进一步深入了解微生物进化和对盐环境的适应性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fe47/6193092/1a6e2eec5c71/fmicb-09-02453-g001.jpg

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