Description and genomic characterization of Nocardioides bruguierae sp. nov., isolated from Bruguiera gymnorhiza

IF 3.3 2区生物学 Q2 BIOTECHNOLOGY & APPLIED MICROBIOLOGY

Systematic and applied microbiology Pub Date : 2023-04-01 DOI:10.1016/j.syapm.2022.126391

Xiaohui Chen , Zhouqing Zheng , Feina Li , Xiao Ma , Feng Chen , Mingsheng Chen , Li Tuo

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引用次数: 1

Abstract

Strains BSK12Z-3^T and BSK12Z-4, two Gram-stain-positive, aerobic, non-spore-forming strains, were isolated from Shankou Mangrove Nature Reserve, Guangxi Zhuang Autonomous Region, China. The diagnostic diamino acid in the cell-wall peptidoglycan of strain BSK12Z-3^T was LL-diaminopimelic acid and MK-8(H₄) was the predominant menaquinone. The polar lipids comprised diphosphatidylglycerol (DPG), phosphatidylglycerol (PG) and phospholipid (PL). The major fatty acids was iso-C_16:0. Phylogenetic analysis based on 16S rRNA gene sequences suggested that the two strains fell within the genus Nocardioides, appearing most closely related to Nocardioides ginkgobilobae KCTC 39594^T (97.5–97.6 % sequence similarity) and Nocardioides marinus DSM 18248^T (97.4–97.6 %). Genome-based phylogenetic analysis confirmed that strains BSK12Z-3^T and BSK12Z-4 formed a distinct phylogenetic cluster within the genus Nocardioides. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values of strains BSK12Z-3^T, BSK12Z-4 with their most related species N. marinus DSM18248^T were within the ranges of 77.2–77.3 % and 21.3–21.4 %, respectively, clearly indicated that strains BSK12Z-3^T, BSK12Z-4 represented novel species. Strains BSK12Z-3^T and BSK12Z-4 exhibited 99.9 % 16S rRNA gene sequence similarity. The ANI and dDDH values between the two strains were 97.8 % and 81.1 %, respectively, suggesting that they belong to the same species. However, DNA fingerprinting discriminated that they were not from one clonal origin. Based on phylogenomic and phylogenetic analyses coupled with phenotypic and chemotaxonomic characterizatons, strains BSK12Z-3^T and BSK12Z-4 could be classified as a novel species of the genus Nocardioides, for which the name Nocardioides bruguierae sp. nov., is proposed. The type strain is BSK12Z-3^T (=CGMCC 4.7709^T = JCM 34554^T).

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Bruguiera gymnorhiza Bruguiera Nocardioides sp11 .的描述和基因组特征

菌株BSK12Z-3T和BSK12Z-4为革兰氏染色阳性、需氧、不产孢子的菌株，分离自广西山口红树林自然保护区。菌株BSK12Z-3T细胞壁肽聚糖中诊断的二氨基酸为ll-二氨基苯甲酸，以MK-8(H4)为主。极性脂质包括二磷脂酰甘油(DPG)、磷脂酰甘油(PG)和磷脂(PL)。主要脂肪酸为iso-C16:0。基于16S rRNA基因序列的系统发育分析表明，两株毒株均属于诺卡依蚊属，与白果诺卡依蚊KCTC 39594T(序列相似性为97.5 ~ 97.6%)和marinus Nocardioides DSM 18248T(序列相似性为97.4 ~ 97.6%)亲缘关系最为密切。基于基因组的系统发育分析证实，菌株BSK12Z-3T和BSK12Z-4在Nocardioides属中形成了一个不同的系统发育集群。菌株BSK12Z-3T、BSK12Z-4与最亲缘种N. marinus DSM18248T的平均核苷酸一致性(ANI)和数字DNA-DNA杂交(dDDH)值分别在77.2 ~ 77.3%和21.3 ~ 21.4%之间，表明菌株BSK12Z-3T、BSK12Z-4为新种。菌株BSK12Z-3T和BSK12Z-4的16S rRNA基因序列相似性达99.9%。两菌株的ANI和dDDH值分别为97.8%和81.1%，表明它们属于同一种。然而，DNA指纹鉴定表明它们不是来自一个克隆起源。基于系统发育和系统发育分析，结合表型和化学分类特征，BSK12Z-3T和BSK12Z-4菌株可归类为Nocardioides bruguierae sp. nov.的诺卡伊蚊属新种。型应变为BSK12Z-3T (=CGMCC 4.7709T = JCM 34554T)。

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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: