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Vallicoccus soli gen. nov., sp. nov., a novel actinobacterium isolated from soil, and description of Vallicoccaceae fam. nov., Motilibacterales ord. nov.

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Abstract

A novel Gram-stain-positive, aerobic, cocci-shaped actinobacterium, designated YIM 75000T, was isolated from a soil sample collected from a dry-hot river valley in Yunnan Province, P.R. China. Growth was observed at 10–45 °C (optimal 37 °C), 0–8% (w/v) NaCl (optimal at 0–3% NaCl) and pH 6.0–8.0 (optimal at pH 7.3). The peptidoglycan contained LL-diaminopimelic acid, glycine, glutamic acid as well as alanine and its type was A3γ with an LL-Dpm-Gly interpeptide bridge. The major cellular fatty acids (> 10%) were C16:0, Summed In Feature 3 (C16:1 ω6c/C16:1 ω7c) and C17:1 ω8c. The predominant menaquinone was MK-9(H4). The major whole-cell sugars contained rhamnose, ribose, arabinose and mannose. The DNA G+C content was 77.0 mol%. The 16S rRNA gene sequence similarities of strain YIM 75000T with other species were less than 94%. Phylogenetic analyses based on 16S rRNA gene sequences and genome data, revealed that strain YIM 75000T together with the genus Motilibacter formed a distinct phylogenetic lineage within the phylum Actinobacteria, separating them from members of all orders. Strain YIM 75000T showed 73.4–73.7% average nucleotide identity and 19.5–19.7% digital DNA–DNA hybridization identity with the closely related genus Motilibacter. Based on the phenotypic, phylogenetic and chemotaxonomic data, it is proposed that the new isolate represents the nomenclature type of the novel species Vallicoccus soli gen. nov., sp. nov. (YIM 75000T = DSM 45377T = KCTC 49228T = CGMCC 1.13844T) which is the nomenclature type of the novel genus Vallicoccus gen. nov. within Vallicoccaceae fam. nov and Motilibacterales ord. nov in the phylum Actinobacteria. The family Vallicoccaceae fam. nov. and the order Motilibacterales (contains Vallicoccaceae fam. nov. and Motilibacteraceae Lee 2013) ord. nov. are formally proposed.

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Acknowledgements

This study was performed with support of the National Natural Science Foundation of China (31760003 and 31270055), Major Science and Technology Projects of Yunnan Province (Development and application of digitalization of biological resources, 202002AA100007), the Science Research Fund Project of Yunnan Provincial Department of Education (2018JS152) and Scientific and Technological Development Project of Yunnan (2018FE001-162). The authors are grateful to Dr. Gabriele Pötter of DSMZ for the cell wall sugars.

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Author notes

  1. Yu-Zhou Feng, Wei-Xun Chunyu and Rui Liang contributed equally to this work.

Authors and Affiliations

  1. Yunnan Institute of Microbiology, Key Laboratory for Conservation and Utilization of Bio-resource, and Key Laboratory for Microbial Resources of the Ministry of Education, School of Life Sciences, Yunnan University, Kunming, 650091, People’s Republic of China

    Yu-Zhou Feng, Wei-Xun Chunyu, Yu-Rong Zhao, Sheng Gao, Yang Ji, Xiao-Yang Zhi & Shu-Kun Tang

  2. School of Medicine, Yunnan University, Kunming, 650091, People’s Republic of China

    Min Yin

  3. Department of Pathogen Biology and Immunology, Kunming Medical University, Kunming, 650500, People’s Republic of China

    Wei-Xun Chunyu, Rui Liang & Le Sun

  4. Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Inhoffenstraße 7B, 38124, Brunswick, Germany

    Richard L. Hahnke & Peter Schumann

  5. West China Biomedical Big Data Center, West China Hospital, Sichuan University, Chengdu, 610065, People’s Republic of China

    Yu-Zhou Feng

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  1. Yu-Zhou Feng
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Correspondence to Xiao-Yang Zhi or Shu-Kun Tang.

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The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain YIM 75000T is JN188954. The Whole genome of strain YIM 75000T has been deposited at DDBJ/ENA/GenBank under the accession number QZEZ00000000.

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Feng, YZ., Chunyu, WX., Liang, R. et al. Vallicoccus soli gen. nov., sp. nov., a novel actinobacterium isolated from soil, and description of Vallicoccaceae fam. nov., Motilibacterales ord. nov.. Antonie van Leeuwenhoek 113, 2155–2165 (2020). https://doi.org/10.1007/s10482-020-01484-5

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