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Planococcus lenghuensis sp. nov., an oil-degrading bacterium isolated from petroleum-contaminated soil

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Abstract

A Gram-staining-positive and aerobic coccus with the ability to degrade petroleum bacterium, designated Y42T, was isolated from the Lenghu oil field located in the northern margin of the Qaidam Basin. Phylogenetic and signature nucleotides analyses revealed that strain Y42T belongs to the genus Planococcus. The multiple sequence alignments of 16S rRNA and housekeeping genes showed that strain Y42T formed a distinct lineage with the other Planococcus clade. The average nucleotide identity (ANI) and DNA–DNA hybridization values (DDH) between strain Y42T and the reference strains were 69.5–70.1 and 19.4–21.7%, respectively, which values were below the threshold for species delineation. The major fatty acids of strain Y42T were anteiso-C15:0. The respiratory quinone was MK-7 (71.8%) as the predominant menaquinone followed the MK-6 (28.2%) and the cell-wall hydrolysates contained LL-diaminopimelic acid. The polar lipid was composed of diphosphatidyl glycerol, phosphatidyl glycerol, phosphoglycolipid, aminophospholipid and four unidentified lipids. The peptidoglycan type was A4α (l-Lys–d-Glu). The strain Y42T possessed larger genome (approximately 4 MB) and revealed obvious differences for the abundance of the COG categories compared with the other Planococcus bacteria. Also, the strain Y42T also possessed more unique orthologous proteins. The structural characteristics of the strain Y42T genome provided a competitive advantage for better survival in petroleum-polluted environments. Combined with the 16S rRNA gene and genome sequence, phenotypic as well as chemotaxonomic characterisations, strain Y42T is considered to represent a novel species of the genus Planococcus, for which the name Planococcus lenghuensis sp. nov. be proposed. The type strain is Y42T (= CGMCC 1.15921T = JCM 32719T).

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Acknowledgements

This work was financed by the Doctoral Research Foundation of Lanzhou City University (grant No. LZCU-BS2019-52), the CAS “Light of West China” Program, the National Natural Science Foundation of China (grant No. 31570498 and No. 31860148), and the Scientific Research Projects of Colleges and Universities in Gansu Province (2018A-111).

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  1. Ruiqi Yang and Binglin Zhang contributed equally to this work.

Authors and Affiliations

  1. School of Geography and Environmental Engineering, Lanzhou City University, Lanzhou, 730070, China

    Ruiqi Yang, Xisheng Tai & Haili Sun

  2. Key Laboratory of Extreme Environmental Microbial Resources and Engineering, Gansu Province, Lanzhou, 730000, China

    Ruiqi Yang, Binglin Zhang, Jincheng Wang, Gaosen Zhang, Wei Zhang, Tuo Chen & Guangxiu Liu

  3. State Key Laboratory of Cryospheric Sciences, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, 730000, China

    Binglin Zhang & Tuo Chen

  4. Key Laboratory of Desert and Desertification, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou, 730000, China

    Jincheng Wang, Gaosen Zhang, Wei Zhang & Guangxiu Liu

  5. College of Life Science and Technology, Longdong University, Qingyang, 745000, Gansu, China

    Jincheng Wang

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  1. Ruiqi Yang
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Contributions

RY, WZ and GZ initiated the study. BZ, TC and GL designed the research and project outline. RY drafted the manuscript. RY and BZ isolated the strain and assembled and annotated the genome. JW and XT made statistical analysis. HS revised the grammar and spelling. All authors read and approved the final manuscript.

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Correspondence to Tuo Chen or Guangxiu Liu.

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Yang, R., Zhang, B., Wang, J. et al. Planococcus lenghuensis sp. nov., an oil-degrading bacterium isolated from petroleum-contaminated soil. Antonie van Leeuwenhoek 113, 839–850 (2020). https://doi.org/10.1007/s10482-020-01394-6

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