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Shewanella subflava sp. nov., a novel multi-resistant bacterium, isolated from the estuary of the Fenhe River into the Yellow River

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Abstract

A aerobic, gram-negative, rod-shaped and polar-flagellum bacterial strain, designated as FYR11-62T, was isolated from the estuary of the Fenhe River into the Yellow River in Shanxi Province, China. The isolate was able to grow at 4–37 °C (optimum, 25 °C), pH 5.5–9.5 (optimum, pH 7.5) and in the presence of 0–7.0% (w/v) NaCl (optimum, 1.0% NaCl). Phylogenetic analyses based on 16S rRNA genes and 1597 single-copy orthologous clusters indicated that strain FYR11-62T affiliated with the genus Shewanella and shared the highest 16S rRNA gene sequence similarity to Shewanella aestuarii SC18T (98.3%) and Shewanella gaetbuli TF-27T (97.3%), respectively. The major fatty acids were summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C16:0 and iso-C15:0. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. The main quinones were Q-7 and Q-8. The genomic DNA G + C content was 41.6%. Gene annotation showed that strain FYR11-62T possessed 30 antibiotic resistance genes, implying its multiple antidrug resistance. The average nucleotide identity and digital DNA–DNA hybridization values between strain FYR11-62T and its closely related species were all below the thresholds for species delineation. The phylogenetic position together with the results of the analysis of morphological, physiological and genomic features support the classification of strain FYR11-62T (= MCCC 1K07242T = KCTC 92244T) as a novel species of the genus Shewanella, for which the name Shewanella subflava sp. nov. is proposed.

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Data availability

The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequence and the genome sequence of strain FYR11-62T are OP662613 and JAPDMX000000000, respectively. The datasets generated or analysed during the current study are available from the corresponding author on reasonable request or on NCBI repository. The novel strain has been deposited to MCCC 1K07242 and KCTC 92244.

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Acknowledgements

The authors are sincerely grateful to Mei-Ling Sun from Shandong University, State Key Laboratory of Microbial Technology and Yan-Jiao Zhang from Qingdao Agricultural University, School of Life Sciences for their skillful technical assistance.

Funding

This work was funded by the Basic Research Program of Shanxi Province (20210302124004), by the Scientific and Technological Innovation Programs of Shanxi Agricultural University (2020BQ39), by the Basic Research Program of Shanxi Province (20210302123368), by the Scientific and Technological Innovation Programs of Higher Education Institutions in Shanxi Province (2021L134) and by the Excellent Talents Come to Shanxi to Reward Scientific Research Projects (SXYBKY2019025).

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Authors and Affiliations

  1. Financial Assets Department, Shanxi Agricultural University, Taigu, 030801, China

    Bi Luo

  2. College of Life Sciences, Shanxi Agricultural University, Taigu, 030801, China

    Jing-Yun Su, Ya-Nan Wang, Li Guan, Kai-Shi Dong, Shao-Fei Shen & Yi Li

  3. College of Animal Science, Shanxi Agricultural University, Taigu, 030801, China

    Hui-Jing Niu

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Contributions

BL, JYS and YNW designed the experiments and wrote the manuscript. LG and KSD performed the genome analysis. HJN revised the manuscript. SFS and YL supervised the experiments.

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Correspondence to Shao-Fei Shen or Yi Li.

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Luo, B., Su, JY., Wang, YN. et al. Shewanella subflava sp. nov., a novel multi-resistant bacterium, isolated from the estuary of the Fenhe River into the Yellow River. Antonie van Leeuwenhoek 116, 511–519 (2023). https://doi.org/10.1007/s10482-023-01829-w

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