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包括新种[具体名称1]和新种[具体名称2]描述在内的[相关物种名称]比较基因组学

Comparative Genomics of Including the Description of sp. nov., and sp. nov.

作者信息

Pujalte María J, Lucena Teresa, Rodrigo-Torres Lidia, Arahal David R

机构信息

Departamento de Microbiología and Colección Española de Cultivos Tipo, Universitat de València, Valencia, Spain.

出版信息

Front Microbiol. 2018 Jan 12;8:2645. doi: 10.3389/fmicb.2017.02645. eCollection 2017.

Abstract

A taxogenomic study was conducted to describe two new species and to analyze the internal consistency of the genus along with and . Strains CECT 5113, CECT 5114, CECT 5118, and CECT 5120 were isolated from coastal Mediterranean seawater, Spain. Cells were Gram-negative, non- motile coccobacilli, aerobic chemoorganotrophs, with an optimum temperature of 26°C and salinity of 3.5-5%. Major cellular fatty acids of strains CECT 5113 and CECT 5114 were C ω7c/ω6c and C 3OH, G+C content was 54.4-54.5 mol% and were able to utilize propionate, L-threonine, L- arginine, and L-aspartate as carbon sources. They exhibited 98.3% 16S rRNA gene sequence similarity, 75.0-75.1 ANIb and 19.5-20.9 digital DDH to type strain of their closest species, . Based on these data, strains CECT 5113 and CECT 5114 are recognized as a new species, for which the name is proposed, with strain CECT 5113 (=LMG 29900) as type strain. Strains CECT 5118 and CECT 5120 were found to constitute another new species, with major cellular fatty acids C ω/ω and C ω 11-methyl and a G+C content of 59.8 mol%; they were not able to utilize propionate, L-threonine, L- arginine or L-aspartate. Their closest species was , with values of 99.6% 16S rRNA gene sequence similarity, 79.1% ANIb and 23.2% digital DDH compared to the type strain, CECT 5383. The name is proposed for this second new species, with strain CECT 5118 (=LMG 29904) as type strain. To better determine the phylogenetic relationship of the two new species, we submitted 12 genomes representing species of , and , to a phylogenomic analysis based on 54 single protein-encoding genes (BCG54). The resulting phylogenomic tree did not agree with the current genera classification, as was divided in three clades, sensu stricto ( sp. nov., and ), plus the three spp (, and sp. SK013) and finally, plus sp. nov. remained apart from the two genera. Phenotypic inferences from explored genomes are presented.

摘要

开展了一项分类基因组学研究,以描述两个新物种,并分析该属与[此处原文缺失相关内容]的内部一致性。菌株CECT 5113、CECT 5114、CECT 5118和CECT 5120从西班牙地中海沿岸海水分离得到。细胞为革兰氏阴性、无运动性的球杆菌,需氧化学有机营养菌,最适温度为26°C,盐度为3.5 - 5%。菌株CECT 5113和CECT 5114的主要细胞脂肪酸为C ω7c/ω6c和C 3OH,G + C含量为54.4 - 54.5 mol%,能够利用丙酸盐、L - 苏氨酸、L - 精氨酸和L - 天冬氨酸作为碳源。它们与最接近物种的模式菌株的16S rRNA基因序列相似性为98.3%,ANIb为75.0 - 75.1,数字DNA - DNA杂交率为19.5 - 20.9。基于这些数据,菌株CECT 5113和CECT 5114被认定为一个新物种,为此提出名称[此处原文缺失新物种名称],以菌株CECT 5113(=LMG 29900)作为模式菌株。发现菌株CECT 5118和CECT 5120构成另一个新物种,主要细胞脂肪酸为C ω/ω和C ω 11 - 甲基,G + C含量为59.8 mol%;它们不能利用丙酸盐、L - 苏氨酸、L - 精氨酸或L - 天冬氨酸。它们最接近的物种是[此处原文缺失相关物种名称],与模式菌株CECT 5383相比,16S rRNA基因序列相似性为99.6%,ANIb为79.1%,数字DNA - DNA杂交率为23.2%。为此第二个新物种提出名称[此处原文缺失新物种名称],以菌株CECT 5118(=LMG 29904)作为模式菌株。为了更好地确定这两个新物种的系统发育关系,我们提交了代表[此处原文缺失相关属名]、[此处原文缺失相关属名]和[此处原文缺失相关属名]物种的12个基因组,基于54个单蛋白编码基因(BCG54)进行系统基因组学分析。所得的系统基因组树与当前的属分类不一致,因为[此处原文缺失相关属名]被分为三个进化枝,狭义的此处原文缺失相关属名,[此处原文缺失相关属名]加上三个[此处原文缺失相关物种名称]([此处原文缺失物种名称]、[此处原文缺失物种名称]和[此处原文缺失物种名称] sp. SK013),最后,[此处原文缺失相关属名]加上[此处原文缺失新物种名称]与这两个属分开。展示了从所探究基因组得出的表型推断。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/22b2/5770400/20c711e0f6ae/fmicb-08-02645-g0001.jpg

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