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Pseudomonas Saliphila sp. nov., a Bacterium Isolated from Oil-Well Production Water in Qinghai Oilfield of China

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Abstract

Strain 16W4-4-3 T was isolated from the oil-well production water in Qinghai Oilfield, China. Cells were Gram-stain-negative, rod-shaped, catalase- and oxidase-positive, facultatively anaerobic and motile by single polar flagellum. The 16S rRNA gene sequences of strain 16W4-4-3 T showed the highest similarities with Pseudomonas profundi M5T (98.8%), P. pelagia CL-AP6T (98.0%), P. salina XCD-X85T (97.7%), and P. sabulinigri J64T (97.5%). The phylogenetic trees based on multilocus sequence analyses with concatenating 16S rRNA, gyrB, rpoD and rpoB genes suggested that this strain should be affiliated to the genus Pseudomonas but remotely related from other species. In addition, whole genome analyses revealed that the digital DNA–DNA hybridization values and average nucleotide identities of strain 16W4-4-3 T against its close relatives were all below 28.8% and 86.5%, respectively. Furthermore, the isolate had totally different whole cell protein profile as compared to those of other species. Major fatty acids were summed feature 8 (C18:1ω7c and/or C18:1ω6c), C16:0, summed feature 3 (C16:1ω7c and/or C16:1ω6c) and C17:0cyclo. Major isoprenoid quinone was ubiquinone (Q-9), and major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, and phosphatidylethanolamine. The DNA G + C content was 58.5 mol%. Therefore, phenotypic, phylogenetic, genomic, chemotaxonomic, and proteomic traits showed that the isolate represented a novel species of the genus Pseudomonas, the name Pseudomonas saliphila sp. nov. is proposed. Type strain is 16W4-4-3 T (= CGMCC 1.13350 T = KCTC 72619 T).

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Abbreviations

ANI:

Average nucleotide identity

ANIb:

Average nucleotide identity with the BLASTN algorithm

ANIm:

Average nucleotide identity using the MUMmer ultrarapid aligning tool

dDDH:

Digital DNA–DNA hybridization

MLSA:

Multilocus sequence analyses

gyrB :

DNA gyrase, subunit B gene

rpoB :

RNA polymerase beta subunit gene

rpoD :

RNA polymerase sigma 70 (sigma D) factor gene

MALDI-TOF MS:

Matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry

MA:

Marine agar 2216 (Difco)

MB:

Marine broth 2216 (Difco

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Acknowledgements

The authors thank the Institute of Microbiology, Chinese Academy of Sciences, for providing the transmission electron microscopy facility. The GenBank/EMBL/DDBJ accession numbers for whole genome and 16S rRNA gene sequences of strain 16W4-4-3 T are VTVA00000000 and MN423266; and whole genome accession numbers for Pseudomonas profundi M5T and P. salina CGMCC 1.12482 T are VTPZ00000000 and VTTI00000000, respectively.

Funding

This work was supported by the National Science and Technology Infrastructure Foundation of China (NIMR-2019); 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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Authors and Affiliations

  1. Key Laboratory of Environmental Pollution Monitoring and Disease Control, Ministry of Education & Talent Base of Microbiology and Human Health of Guizhou Province, School of Basic Medical Sciences, Guizhou Medical University, Guiyang, Guizhou, 550025, People’s Republic of China

    **ao-Juan Zhang, Mei-Zhu Wang, Liang Zhao & Ying-Qian Kang

  2. China General Microbiological Culture Collection Center, Institute of Microbiology, Chinese Academy of Sciences, Bei**g, 100101, People’s Republic of China

    **ao-Juan Zhang, Hong-Can Liu, Yu-Guang Zhou & Man Cai

  3. State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Bei**g, 100101, People’s Republic of China

    Yu-Guang Zhou

  4. College of Engineering, Peking University, Bei**g, 100871, People’s Republic of China

    **ao-Lei Wu & Yong Nie

  5. The Department of Pharmacognosy, (The State Key Laboratory of Functions and Applications of Medicinal Plants, The High Efficacy Application of Natural Medicinal Resources Engineering Center of Guizhou Province, The Key Laboratory of Optimal Utilization of Natural Medicine Resources), School of Pharmaceutical Sciences, Guizhou Medical University, University Town, Guian New District, Guiyang, Guizhou, 550025, People’s Republic of China

    Qi-Rui Li

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Correspondence to Man Cai or Ying-Qian Kang.

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The authors declare there are no conflicts of interest. The authors have obtained the appropriate permissions from the responsible authorities of Qinghai Oilfield (Tibetan Plateau) for using oil-well production water in the study.

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Zhang, XJ., Liu, HC., Zhou, YG. et al. Pseudomonas Saliphila sp. nov., a Bacterium Isolated from Oil-Well Production Water in Qinghai Oilfield of China. Curr Microbiol 77, 1924–1931 (2020). https://doi.org/10.1007/s00284-020-01986-5

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