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种内多样性的复杂性,鉴定成员,提出新物种 sp. nov.

Diversity within the complex, identification of and members, proposal of the novel species sp. nov.

机构信息

Univ Lyon, CNRS, INSA Lyon, UCBL, UMR 5240 Microbiologie Adaptation et Pathogénie, F-69622 Villeurbanne, France.

Sorbonne Université, INRAE, Institute of Ecology and Environmental Sciences-Paris (iEES-Paris), F-75252 Paris cedex, France.

出版信息

Int J Syst Evol Microbiol. 2021 Nov;71(11). doi: 10.1099/ijsem.0.005059.

Abstract

The genus comprises plant pathogens that cause diseases in a large range of economically important crops and ornamentals. Strains previously assigned to the species are major pathogens attacking vital crops such as maize and rice. They are also frequently isolated from surface water. The newly described species is closely related to members, so that the limit between the two species can be difficult to define. In order to clearly distinguish the two species, globally described by the term ' complex', we sequenced the genome of four new water isolates and compared them to 14 genomes available in databases. Calculation of average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values confirmed the phylogenomic classification into the two species and . It also allowed us to propose a new species, sp. nov., to characterize a clade distinct from those containing the type strain NCPPB2538. Strain S31 (CFBP 8716=LMG 32070) isolated from water in France is proposed as the type strain of the new species. Phenotypic analysis of eight publically available strains revealed traits common to the five tested members but apparently not shared by the type strain. Genomic analyses indicated that a simple distinction between the species , and can be obtained on the basis of the sequence. can be distinguished from the two other species by growth on l-tartaric acid. Based on the marker, several strains previously identified as were re-assigned to the species or . This study also highlighted the broad host range diversity of these three species.

摘要

该属包含引起多种重要经济作物和观赏植物病害的植物病原体。以前被分配到物种的菌株是攻击玉米和水稻等重要作物的主要病原体。它们也经常从地表水分离出来。新描述的物种与成员密切相关,因此很难定义这两个物种之间的界限。为了清楚地区分这两个物种,我们对四个新的水生分离株进行了基因组测序,并将其与数据库中可用的 14 个基因组进行了比较。平均核苷酸同一性 (ANI) 和数字 DNA-DNA 杂交 (dDDH) 值的计算证实了两个物种的系统发育分类,和。它还使我们能够提出一个新的物种,即,以表征与包含类型菌株 NCPPB2538 的类群不同的类群。从法国水中分离的菌株 S31 (CFBP 8716=LMG 32070) 被提议作为新物种的模式株。对八个公开可得菌株的表型分析显示,与五个测试的成员共同的特征,但显然不与类型菌株共享。基因组分析表明,基于序列可以简单地区分物种,和。可以通过在 l-酒石酸上的生长来区分这两个其他物种。基于 标记,以前被鉴定为的几个菌株被重新分配到或物种。这项研究还强调了这三个物种的广泛宿主范围多样性。

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