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A critical rebuttal of the proposed division of the genus Arcobacter into six genera using comparative genomic, phylogenetic, and phenotypic criteria.
Systematic and Applied Microbiology ( IF 3.3 ) Pub Date : 2020-06-30 , DOI: 10.1016/j.syapm.2020.126108
Stephen L W On 1 , William G Miller 2 , Patrick J Biggs 3 , Angela J Cornelius 4 , Peter Vandamme 5
Affiliation  

The proposal to restructure the genus Arcobacter into six distinct genera was critically examined using: comparative analyses of up to 80 Epsilonproteobacterial genome sequences (including 26 arcobacters); phylogenetic analyses of three housekeeping genes and also 342 core genes; and phenotypic criteria. Genome sequences were analysed with tools to calculate Percentage of Conserved Proteins, Average Amino-acid Identity, BLAST-based Average Nucleotide Identity, in silico DNA–DNA hybridisation values, genome-wide Average Nucleotide Identity, Alignment Fractions and G + C percentages. Genome analyses revealed the genus Arcobacter sensu lato to be relatively homogenous, and phylogenetic analyses clearly distinguished the group from other Epsilonproteobacteria. Genomic distinction of the genera proposed by Pérez-Cataluña et al. [2018] was not supported by any of the measures used and a subsequent risk of strain misidentification clearly identified. Similarly, phenotypic analyses supported the delineation of Arcobacter sensu lato but did not justify the position of the proposed novel genera. The present polyphasic taxonomic study strongly supports the continuance of the classification of “aerotolerant campylobacters” as Arcobacter and refutes the proposed genus-level subdivision of Pérez-Cataluña et al. [2018].



中文翻译:

使用比较的基因组,系统发育和表型标准,将拟杆菌属划分为六个属的关键性反驳。

使用以下方法严格审查了将Arcobacter重组为六个不同属的提议:对多达80个Epsilonproteobacterial基因组序列(包括26个Arcobacters)进行比较分析;三种管家基因以及342个核心基因的系统发育分析;和表型标准。使用工具分析基因组序列,以计算保守蛋白的百分比,平均氨基酸同一性,基于BLAST的平均核苷酸同一性,计算机DNA-DNA杂交值,全基因组范围内的平均核苷酸同一性,比对分数和G + C百分比。基因组分析揭示了弓形杆菌相对同质,系统发育分析清楚地将该组与其他Epsilon变形杆菌分离开来。Pérez-Cataluña等人提出的属的基因组区分。[2018]不受任何使用的措施的支持,并且清楚地确定了菌株错误识别的后续风险。相似地,表型分析支持了淡水杆菌的描述,但没有证明拟议新属的地位。目前的多相分类学研究强烈支持将“耐食性弯曲杆菌”分类为持续杆状杆菌,并驳斥了Pérez-Cataluña等人提出的属水平细分。[2018]。

更新日期:2020-06-30
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