五种新型黄杆菌的综合基因组分析：Flavobacterium piscisymbiosum sp.nov.、Flavobacterium pisciphilum sp.nov.、Flavobacterium flavipigmentatum sp.nov.、Flavobacterium lipolyticum sp.nov.和Flavobacterium cupriresistens sp.nov.五种新型黄杆菌的基因组综合分析。

IF 3.3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Systematic and applied microbiology Pub Date : 2024-05-14 DOI:10.1016/j.syapm.2024.126518

Izzet Burcin Saticioglu , Hilal Ay , Soner Altun , Nihed Ajmi , Enes Said Gunduz , Huban Gocmen , Muhammed Duman

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引用次数: 0

摘要

通过对养鱼场中依赖养殖的细菌进行研究，获得了 8 个分离株，并根据 16S rRNA 基因序列的配对分析，确定其为黄杆菌属成员。经计算，F-30 T 菌株与 bizetiae 黄杆菌的配对一致性值最高，为 98.8%；F-65 T 菌株与 branchiarum 黄杆菌的配对一致性值最高，为 99.0%；F-126 T 菌株与 tructae 黄杆菌的配对一致性值最高，为 98.7%；F-323 T 菌株与 cupreum 黄杆菌的配对一致性值最高，为 98.2%；F-70 T 菌株与 geliluteum 黄杆菌的配对一致性值最高，为 99.7%。此外，菌株 F-33、Fl-77 和 F-70 T 的 16S rRNA 基因相同度为 100%，而菌株 F-323 T 和 Fl-318 的相同度为 99.9%。为了确定菌株的分类来源，采用了包括全基因组数据比较分析在内的多相方法。除了菌株的形态学、生理学、生物化学和化学分类学特征外，dDDH 和 ANI 的整体基因组相关性指数低于既定阈值也证实了这些菌株被归类为黄杆菌属中的五个新种。此外，还对菌株的基因组进行了全面分析，以确定其生物合成基因簇、毒力特征和生态分布模式。根据多相特征，包括比较基因组分析，得出结论：菌株 F-30T、F-65T、F-70T、F126T 和 F-323 T 代表黄杆菌属中的五个新种，其中 Flavobacterium piscisymbiosum sp.F-30 T（=JCM 34194 T = KCTC 82254 T）、Flavobacterium pisciphilum sp.F-65 T (=JCM 34197 T = KCTC 82257 T), Flavobacterium flavipigmentatum sp.F-70 T (Fl-33 = Fl-77 = JCM 34198 T = KCTC 82258 T), Flavobacterium lipolyticum sp.F-126 T (JCM 34199 T = KCTC 82259 T) and Flavobacterium cupriresistens sp.F-323 T (Fl-318 = JCM 34200 T = KCTC 82260 T)。

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Comprehensive genome analysis of five novel flavobacteria: Flavobacterium piscisymbiosum sp. nov., Flavobacterium pisciphilum sp. nov., Flavobacterium flavipigmentatum sp. nov., Flavobacterium lipolyticum sp. nov. and Flavobacterium cupriresistens sp. nov.

Eight isolates were obtained through a study on culture-dependent bacteria from fish farms and identified as members of the genus Flavobacterium based on pairwise analysis of the 16S rRNA gene sequences. The highest pairwise identity values were calculated as 98.8 % for strain F-30 ^T and Flavobacterium bizetiae, 99.0 % for strain F-65 ^T and Flavobacterium branchiarum, 98.7 % for strain F-126 ^T and Flavobacterium tructae, 98.2 % for strain F-323 ^T and Flavobacterium cupreum while 99.7 % identity level was detected for strain F-70 ^T and Flavobacterium geliluteum. In addition, strains F-33, Fl-77, and F-70 ^T shared 100 % identical 16S rRNA genes, while strains F-323 ^T and Fl-318 showed 99.9 % identity. A polyphasic approach including comparative analysis of whole-genome data was employed to ascertain the taxonomic provenance of the strains. In addition to the morphological, physiological, biochemical and chemotaxonomic characteristics of the strains, the overall genome-relatedness indices of dDDH and ANI below the established thresholds confirmed the classification of the strains as five novel species within the genus Flavobacterium. The comprehensive genome analyses of the strains were also conducted to determine the biosynthetic gene clusters, virulence features and ecological distribution patterns. Based on the polyphasic characterisations, including comparative genome analyses, it is concluded that strains F-30 ^T, F-65 ^T, F-70 ^T, F126^T and F-323 ^T represent five novel species within the genus Flavobacterium for which Flavobacterium piscisymbiosum sp. nov. F-30 ^T (=JCM 34194 ^T = KCTC 82254 ^T), Flavobacterium pisciphilum sp. nov. F-65 ^T (=JCM 34197 ^T = KCTC 82257 ^T), Flavobacterium flavipigmentatum sp. nov. F-70 ^T (Fl-33 = Fl-77 = JCM 34198 ^T = KCTC 82258 ^T), Flavobacterium lipolyticum sp. nov. F-126 ^T (JCM 34199 ^T = KCTC 82259 ^T) and Flavobacterium cupriresistens sp. nov. F-323 ^T (Fl-318 = JCM 34200 ^T = KCTC 82260 ^T), are proposed.

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来源期刊

Systematic and applied microbiology 生物-生物工程与应用微生物

CiteScore

7.50

自引率

5.90%

发文量

审稿时长

22 days

期刊介绍： Systematic and Applied Microbiology deals with various aspects of microbial diversity and systematics of prokaryotes. It focuses on Bacteria and Archaea; eukaryotic microorganisms will only be considered in rare cases. The journal perceives a broad understanding of microbial diversity and encourages the submission of manuscripts from the following branches of microbiology: