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Sphingomicrobium clamense sp. nov., Isolated from Sediment of Clam Island Beach in China

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Abstract

A Gram-stain-negative, non-flagellated, aerobic, ovoid or rod-shaped bacterium with motility, designated B8T, was isolated from the sediment of Clam Island beach, Liaoning province, China. The optimum growth of strain B8T occurred at 35 oC, pH 7.0, and in the presence of 4.0–5.0% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B8T formed a distinct lineage within the genus Sphingomicrobium and was closely related to Sphingomicrobium nitratireducens O-35T (98.3% sequence similarity), Sphingomicrobium aestuariivivum KCTC 42286T (96.9%), and Sphingomicrobium astaxanthinifaciens JCM 18551T (96.5%). The digital DNA–DNA hybridization and average nucleotide identity values between strain B8T and closely related strains were lower than 21.0% and 78.0%, much lower than the cutoff values of 70.0% and 95.0%, respectively, for bacterial species delineation. The dominant respiratory quinone of strain B8T was ubiquinone-10. The major fatty acids were Sum In Feature 8 (C18:1ω7c and/or C18:1ω6c), Sum In Feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C17:1ω6c, C18:1 2-OH, and C16:0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid, glycolipids, and four unknown polar lipids. The DNA G + C content of strain B8T was 63.9%. Based on the phenotypic, phylogenetic, and chemotaxonomic analyses, strain B8T is considered a new species of Sphingomicrobium, for which the name Sphingomicrobium clamense sp. nov. is proposed. The type strain is B8T (= CGMCC 1.19486T = KCTC 92052T).

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Fig. 1
Fig. 2

Data Availability

The GenBank/EMBL/DDBJ accession numbers of the 16S rRNA gene and the draft genome sequences of strain B8T are OR042996 and JAHVAH000000000, respectively. This article and the supplementary information files include all other data generated or analyzed during this study.

Code Availability

Not applicable.

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Acknowledgements

We introduce our sincere thanks and gratitude to Anhui University for supporting and providing the requirements of scientific research.

Funding

This work was supported by the Special Foundation for National Science and Technology Basic Research Program of China (NO. 2019FY100706), the Science Fund for Distinguished Young Scholars of Anhui Province (No. 2008085J12), and the Science and Technology Major Project of Anhui Province (No. 202103a06020006).

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Authors and Affiliations

  1. School of Life Sciences, Anhui University, Hefei, Anhui, 230601, China

    Xing Li, Lulu Mu, Zimu Zhu, Yazhong Xiao & Zemin Fang

  2. Anhui Provincial Engineering Technology Research Center of Microorganisms and Biocatalysis, Hefei, Anhui, 230601, China

    Xing Li, Lulu Mu, Zimu Zhu, Yazhong Xiao & Zemin Fang

  3. Anhui Key Laboratory of Modern Biomanufacturing, Hefei, Anhui, 230601, China

    Xing Li, Lulu Mu, Zimu Zhu, Yazhong Xiao & Zemin Fang

  4. Institute of Soil and Fertilizer, Anhui Academy of Agricultural Sciences, Hefei, 230031, China

    Yanfeng Zhang

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Contributions

XL, LLM, YFZ, and ZMZ performed the experiments. XL, LLM, and YFZ wrote the manuscript. YZX and ZMF designed the study and revised the manuscript. All the authors read and approved the final version of the manuscript.

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Correspondence to Zemin Fang.

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Li, X., Mu, L., Zhang, Y. et al. Sphingomicrobium clamense sp. nov., Isolated from Sediment of Clam Island Beach in China. Curr Microbiol 81, 104 (2024). https://doi.org/10.1007/s00284-024-03639-3

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