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Lysinibacillus cavernae sp. nov., isolated from cave soil

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Abstract

A Gram-staining positive, motile, rod-shaped and subterminal endospore-forming bacterium, designated strain SYSU K30005T, was isolated from a soil sample collected from a karst cave in Libo county, Guizhou province, south-western China. Strain SYSU K30005T showed the highest 16S rRNA gene sequence similarity with Lysinibacillus fusiformis (98.6%) and Lysinibacillus sphaericus (98.2%). In phylogenetic tree, strain SYSU K30005T clade with the members of the genus Lysinibacillus. Based on the phylogenetic and 16S gene sequence result, strain SYSU K30005T was affiliated to the genus Lysinibacillus. The growth of SYSU K30005T was observed at 15–37 °C (optimum, 28 °C), pH 6.0–9.0 (optimum, pH 7.0) and in the presence of 0–4% (w/v) NaCl (optimum in 3.5% NaCl). Cell wall peptidoglycan type was A4α (Lys–Asp). The cell-wall sugars of SYSU K30005T were ribose, galactose and mannose and MK-7 was the only quinone. The fatty acids (> 5% of total fatty acids) were iso-C15:0, anteiso-C15:0, iso-C16:0 and iso-C17:0. The polar lipids profile included diphosphatidylglycerol, phosphatideylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The genomic DNA G + C content was 37.2 mol%. The average nucleotide identity values between SYSU K30005T and its closest relatives were below the cut-off level (95–96%) for species delineation. The results support the conclusion that strain SYSU K30005T represents a novel species of the genus Lysinibacillus, for which we proposed the name Lysinibacillus cavernae sp. nov. The type strain is SYSU K30005T (= KCTC 43130T = CGMCC 1.17492T).

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Acknowledgements

The authors are grateful to Professor Yu-Guang Zhou (CGMCC, China) and Prof. Jung-Sook Lee (KCTC, Republic of Korea) for providing the reference type strain.

Funding

This work was supported by Guizhou Scientific Plan Project [(2019) 2873]; Excellent Youth Talent Training Project of Guizhou Province [(2017) 5639]; Guiyang Science and Technology Project [(2017) No. 5-19]; Talent Base Project of Guizhou Province, China [FCJD2018-22]; Research Fund of Education Bureau of Guizhou Province, China [(2018) 481].

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  1. Yu Kan and Xue-Ke Niu contributed equally to this work

Authors and Affiliations

  1. Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education of Guizhou and Guizhou Talent Base for Microbiology and Human Health, Key Laboratory of Medical Microbiology and Parasitology of Education, Department of Guizhou, School of Basic Medical Sciences, Guizhou Medical University, Guiyang, People’s Republic of China

    Yu Kan, Xue-Ke Niu & Ying-Qian Kang

  2. State Key Laboratory of Biocontrol and Guangdong Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, 510275, People’s Republic of China

    Manik Prabhu Narsing Rao, Zhou-Yan Dong, Yuan-Guo Xie & Wen-Jun Li

  3. Department of Biotechnology, Dayananda Sagar College of Engineering (Affiliated To Visvesvaraya Technological University, Belagavi), Bangalore, Karnataka, 560111, India

    Manik Prabhu Narsing Rao

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  1. Yu Kan
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The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence and whole Genome Shotgun project of strain SYSU K30005T are MN611148 and WMEF00000000, respectively.

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Kan, Y., Niu, XK., Rao, M.P.N. et al. Lysinibacillus cavernae sp. nov., isolated from cave soil. Arch Microbiol 202, 1529–1534 (2020). https://doi.org/10.1007/s00203-020-01852-9

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