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Ornithinimicrobium cavernae sp. nov., an actinobacterium isolated from a karst cave

Abstract

A novel actinobacterium, designated strain CFH 30183T, was isolated from a soil sample collected from a karst cave in Luoyang, Henan Province. The taxonomic position of the strain was investigated using a polyphasic approach. Cells of strain CFH 30183T were observed to be Gram-stain positive, motile, asporogenous and coccoid to rod shaped. The strain was found to be aerobic and oxidase positive. On the basis of 16S rRNA gene sequence analysis, strain CFH 30183T was found to be closely related to Ornithinimicrobium murale 01-Gi-040T (97.8% sequence identity). The ANIb/ANIm values between strain CFH 30183T and O. murale DSM 22056T were found to be 80.3%/85.9%. Strain CFH 30183T was found to grow optimally at 28–32 °C, at pH 8.0–9.0 and in the presence of up to 7% NaCl (w/v). Whole cell hydrolysates of strain CFH 30183T contained l-ornithine as the diagnostic diamino acid, and arabinose, glucose, mannose and rhamnose as whole cell sugars. The respiratory quinone was determined to be MK-8(H4), while the major fatty acids were found to consist of iso-C15:0 and iso-C16:0. The polar lipids profile was found to include diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, an unidentified phospholipid, an unidentified phosphoglycolipid and four unidentified lipids. The DNA G + C content of strain CFH 30183T was calculated to be 70.9%. Based on the phenotypic, genotypic and phylogenetic data obtained, strain CFH 30183T is considered to represent a novel species of the genus Ornithinimicrobium, for which the name Ornithinimicrobium cavernae sp. nov. is proposed. The type strain is CFH 30183T (= KCTC 49018T = CGMCC 1.16393T).

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Acknowledgements

This work was supported by National Key Research and Development Program of China (2017YFD0200503), National Natural Science Foundation of China (Nos. 31600015, 31500004), Innovation Scientists and Technicians Troop Construction Projects of Henan Province (CXTD2016043), National Fundamental Fund Project Subsidy Funds of Personnel Training of China (No. J1310025) and Henan Province University youth researcher support project (2017GGJS106). W.-J. Li was also supported by Guangdong Province Higher Vocational Colleges and Schools Pearl River Scholar Funded Scheme (2014). The authors are grateful to Rüdiger Pukall (DSMZ, Germany) for kindly providing the reference type strain.

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LYZ, HM, WJL and GXN designed research and project outline. LYZ, BZF, HM and XLM performed isolation, deposition and identification. JYJ, NS and XTZ performed genome analysis. LYZ, BZF and WJL drafted the manuscript. All authors read and approved the final manuscript.

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Correspondence to Wen-Jun Li or Guo-Xing Nie.

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Zhang, LY., Ming, H., Meng, XL. et al. Ornithinimicrobium cavernae sp. nov., an actinobacterium isolated from a karst cave. Antonie van Leeuwenhoek 112, 179–186 (2019). https://doi.org/10.1007/s10482-018-1141-6

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  • DOI: https://doi.org/10.1007/s10482-018-1141-6

Keywords

  • Ornithinimicrobium cavernae sp. nov.
  • Karst cave
  • Polyphasic taxonomy