Pseudonocardia spirodelae sp. nov., isolated from duckweed and formal proposal to reclassify Pseudonocardia antarctica as a later heterotypic synonym of Pseudonocardia alni and reclassify Pseudonocardia carboxydivorans as Pseudonocardia alni subsp. carboxydivorans.

IF 2 3区 生物学 Q4 MICROBIOLOGY International journal of systematic and evolutionary microbiology Pub Date : 2025-01-01 DOI:10.1099/ijsem.0.006608
Waranya Butdee, Yuparat Saimee, Chanwit Suriyachadkun, Kannika Duangmal
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Abstract

A novel Pseudonocardia strain DW16-2T, isolated from duckweed (Spirodela polyrhiza), was taxonomically studied in detail. The analysis based on its 16S rRNA gene sequence revealed that the strain was most closely related to Pseudonocardia carboxydivorans Y8T (98.8%), followed by Pseudonocardia tropica YIM 61452T (98.7%), Pseudonocardia antarctica DVS 5a1T (98.7%) and Pseudonocardia alni DSM 44104T (98.7%). The average nucleotide identity (ANI) based on blast and digital DNA-DNA hybridization (dDDH) relatedness values between strain DW16-2T and their closest type strains were below the threshold values for identifying a novel species. Morphological, physiological and chemotaxonomic features of strain DW16-2T were typical for the genus Pseudonocardia by forming extensively branched substrate mycelium and aerial mycelium that fragmented into rod-shaped spore, with a smooth surface. The whole-cell hydrolysates of strain DW16-2T contained meso-diaminopimelic acid as the diagnostic diamino acid, and the whole-cell sugars were arabinose, galactose, glucose and a trace amount of ribose. The polar lipids contained phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol and unidentified phospholipids. The menaquinone (MK) was MK-8(H4). The cellular fatty acids (>5 %) were iso-C16 : 0, iso-C16 : 1 H, summed feature 3: C16 : 1 ω7c/C16 : 1 ω6c; C16 : 1 ω6c/C16 : 1 ω7c, C17 : 1 ω8c and anteiso-C17 : 0. Characterization based on chemotaxonomic, phenotypic, genotypic and phylogenetic evidence demonstrated that strain DW16-2T represents a novel species of the genus Pseudonocardia, for which the name Pseudonocardia spirodelae sp. nov. (type strain DW16-2T = TBRC 16418T = NBRC 115857T) is proprosed. In addition, the comparison of the whole genome sequences suggested that P. alni and P. antarctica belong to the same species and P. carboxydivorans is a subspecies of P. alni. Therefore, it is proposed that P. antarctica Prabahar et al. 2004 is reclassified as a later heterotypic synonym of P. alni (Evtushenko et al. 1989) Warwick et al. 1994, and P. carboxydivorans Park et al. 2008 is proposed as a subspecies of P. alni (Evtushenko et al. 1989) Warwick et al. 1994.

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从浮萍中分离出的伪心梗(pseudoncardidia spirodelae sp. nov.),正式建议将南极伪心梗(pseudoncardidia antarctica)重新分类为alni伪心梗(pseudoncardidia alni)的后异型同义种,将carboxydivorans重新分类为alni伪心梗亚种。carboxydivorans。
对从浮萍(Spirodela polyrhiza)中分离得到的一株伪心菌DW16-2T进行了详细的分类研究。16S rRNA基因序列分析显示,该菌株与pseudocardidia carboxydivorans Y8T亲缘关系最密切(98.8%),其次为pseudocardidia tropica YIM 61452T(98.7%)、pseudoncardidia antarctica DVS 5a1T(98.7%)和pseudoncardidia alni DSM 44104T(98.7%)。菌株DW16-2T与其最近型菌株的平均核苷酸同源性(ANI)和数字DNA-DNA杂交(dDDH)亲缘性值均低于鉴定新种的阈值。菌株DW16-2T在形态、生理和化学分类上具有假心草属的典型特征,形成分枝广泛的底生菌丝和气生菌丝,并破碎成杆状孢子,表面光滑。菌株DW16-2T全细胞水解产物中诊断二氨基戊酸,全细胞糖为阿拉伯糖、半乳糖、葡萄糖和微量核糖。极性脂质含有磷脂酰乙醇胺、磷脂酰胆碱、磷脂酰甘油和未识别的磷脂。甲基萘醌(MK)为MK-8(H4)。细胞脂肪酸(bbb5 %)分别为iso-C16: 0, iso-C16: 1 H,总特征3:C16: 1 ω7c/C16: 1 ω6c;C16: 1ω6 c / C16: 1ω7 c, C17: 1ω8 c和anteiso-C17: 0。基于化学分类、表型、基因型和系统发育证据的鉴定表明,菌株DW16-2T是Pseudonocardia属的一个新种,并建议将其命名为Pseudonocardia spirodelae ps . nov(型菌株DW16-2T = TBRC 16418T = NBRC 115857T)。此外,全基因组序列比较表明,P. alni和P. antarctica属于同一种,P. carboxydivorans是P. alni的一个亚种。因此,有人建议将P. antarctica Prabahar et al. 2004重新归类为P. alni (Evtushenko et al. 1989)的后异型同义词(Warwick et al. 1994),并提出P. carboxydivorans Park et al. 2008作为P. alni的一个亚种(Evtushenko et al. 1989) Warwick et al. 1994。
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来源期刊
CiteScore
5.20
自引率
21.40%
发文量
426
审稿时长
1 months
期刊介绍: Published by the Microbiology Society and owned by the International Committee on Systematics of Prokaryotes (ICSP), a committee of the Bacteriology and Applied Microbiology Division of the International Union of Microbiological Societies, International Journal of Systematic and Evolutionary Microbiology is the leading forum for the publication of novel microbial taxa and the ICSP’s official journal of record for prokaryotic names. The journal welcomes high-quality research on all aspects of microbial evolution, phylogenetics and systematics, encouraging submissions on all prokaryotes, yeasts, microfungi, protozoa and microalgae across the full breadth of systematics including: Identification, characterisation and culture preservation Microbial evolution and biodiversity Molecular environmental work with strong taxonomic or evolutionary content Nomenclature Taxonomy and phylogenetics.
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