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Sphingomonas gimensis sp. nov., a novel Gram-negative bacterium isolated from abandoned lead–zinc ore mine

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Abstract

A novel bacterial strain designated 9PNM-6T was isolated from an abandoned lead–zinc ore mine site in Meizhou, Guangdong Province, China. The isolate was found to be Gram-negative, rod-shaped, orange-pigmented, strictly aerobic, oxidase- and catalase-positive. Growth occurred at 0–4 % NaCl (w/v, optimum, 0 %), at pH 6.0–8.0 (optimum, pH 7.0) and at 15–32 °C (optimum, 28–30 °C). Phylogenetic analysis based on 16S rRNA gene sequence similarities showed that strain 9PNM-6T belongs to the genus Sphingomonas, with the highest sequence similarities with Sphingomonas jejuensis NBRC 107775T (99.7 %), Sphingomonas koreensis KCTC 2882T (95.1 %) and Sphingomonas dokdonesis KCTC 12541T (95.1 %). The chemotaxonomic characteristics of strain 9PNM-6T were consistent with those of the genus Sphingomonas. The predominant respiratory quinone was identified as ubiquinone Q-10, the major polyamine as sym-homospermidine, and the major cellular fatty acids as C18:1 ω7c, C16:0, C16:1 ω7c and/or C16:1 ω6c and C14:0 2-OH. The major polar lipids are sphingoglycolipid, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatideylcholine, an unidentified phospholipid and four unidentified aminolipids. The genomic DNA G+C content of strain 9PNM-6T was determined to be 69.2 ± 0.6 mol%. Based on comparative analyses of morphological, physiological and chemotaxonomic data, and levels of DNA–DNA relatedness values, strain 9PNM-6T is considered to represent a novel species of the genus Sphingomonas, for which the name Sphingomonas gimensis sp. nov. (Type strain 9PNM-6T = GIMCC 1.655T = CGMCC 1.12671T = DSM 27569T) is proposed.

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Acknowledgments

We thank Dr. Koei Hamana from Maebashi Institute of Technology for his kind help in polyamine pattern analysis. We are grateful to Dr. Elena Ivanova and the anonymous referees whose insightful suggestions significantly improve the paper. This work was supported by the Natural Science Foundation of China, PR China (No. 31070103, 31200006) and the Guangdong Natural Science Foundation (No. 10251007002000001, S2013010014187).

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  1. State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou, 510070, People’s Republic of China

    Guang-Da Feng, Song-Zhen Yang, Yong-Hong Wang, Guo-Zhen Zhao, Ming-Rong Deng & Hong-Hui Zhu

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  1. Guang-Da Feng
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  2. Song-Zhen Yang
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Correspondence to Hong-Hui Zhu.

Additional information

The GenBank accession number for 16S rRNA gene sequence of strain 9PNM-6T is JQ608327.

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Feng, GD., Yang, SZ., Wang, YH. et al. Sphingomonas gimensis sp. nov., a novel Gram-negative bacterium isolated from abandoned lead–zinc ore mine. Antonie van Leeuwenhoek 105, 1091–1097 (2014). https://doi.org/10.1007/s10482-014-0167-7

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