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Pararhizobium qamdonense sp. nov., Isolated from an Alpine Soil in Tibet and the Reclassification of Rhizobium gei Shi et al. 2016 as Pararhizobium gei comb. nov.

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Abstract

A novel Gram-stain-negative, aerobic, rod-shaped bacterium named T808T was isolated from an alpine soil in Qamdo, Tibet, PR China. Strain T808T grew at 5–30℃, pH 5.0–9.0 (optimum, 25℃ and pH 7.0–8.0) with 0–2% (w/v) NaCl (optimum, 0%). The 16S rRNA gene sequences of strain T808T showed the highest similarity with Pararhizobium herbae CCBAU83011T (98.8%), followed by Pararhizobium polonicum F5.1T (98.7%), Pararhizobium giardinii H152T (98.5%), Rhizobium gei ZFJT-2 T (98.4%), and Pararhizobium antarcticum NAQVI59T (97.5%). The highest digital DNA-DNA hybridization (dDDH), core-proteome average amino acid identity (cpAAI) and average nucleotide identity (ANI) values between strain T808T and related strains were estimated as 28.0%, 92.1% and 84.4%, respectively. Phylogenetic analysis based on 16S rRNA, core-proteome and whole-genome indicated that strain T808T belonged to the genus Pararhizobium. The genome size was 6.24 Mbp with genomic DNA G + C content of 60.1%. The major cellular fatty acids were Summed feature 8 (C18:1 ω7c or C18:1 ω6c), C16:0 and C19:0 cyclo ω8c. The polar lipids were diphosphatidyl glycerol, phosphatidyl glycerol, phosphatidyl ethanolamine, phosphatidyl choline and unidentified aminophospholipid. The isoprenoid quinone were ubiquinone-10 and ubiquinone-9. Based on phenotypic, phylogenetic, and genotypic data, strain T808T is considered to represent a novel species of the genus Pararhizobium, for which the name Pararhizobium qamdonense sp. nov. is proposed. The type strain is T808T (= JCM 36247 T = CICC 25216 T). According to phylogenetic coherence based on 16S rRNA, core-proteome and whole-genome, it is also proposed that the type strain Rhizobium gei Shi et al. 2016 should be reclassified as Pararhizobium gei comb. nov., the type strain is ZFJT-2 T (= CCTCC AB 2013015 T = KCTC 32301 T = LMG 27603 T).

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Data Availability

The 16S rRNA gene and genome sequences of Pararhizobium qamdonense T808T and Pararhizobium gei ZFJT-2 T have been deposited in GenBank.

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Acknowledgements

We would like to express our gratitude to Prof. Aharon Oren from Hebrew University of Jerusalem for his advice and support in naming the Latin scientific name of this strain.

Funding

This research was financially supported by the National Natural Science Foundation of Tibet (No.XZ202101ZR0090G), the Special Financial Item of Tibet Autonomous Region (No.XZNKY-2018-C-026), the Training Program for Excellent Young Innovators of Changsha (No.kq2206037), the Science and Technology Innovation Program of Hunan Province (No.2022RC1170) and the Hunan Science and Technology Talent Lifting Project—Young and Middle-Aged Excellent Science and Technology Talent Training Program (2023TJ-Z04).

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Authors and Affiliations

  1. Institute of Agricultural Quality Standard and Testing, Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, 850032, China

    Yi-fan Zhang, Yan-na Dai, Ji-feng Pu & Hu Pan

  2. College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha, 410128, China

    Hu-hu Liu, Hu Pan & Yun Tian

  3. Agricultural and Livestock Products Engineering Technology Research Center of Tibet Autonomous Region, Lhasa, 850032, China

    Yi-fan Zhang, Yan-na Dai, Ji-feng Pu & Hu Pan

  4. Institute of Agricultural Quality Standard and Testing Technology, Sichuan Academy of Agricultural Sciences, Chengdu, 610066, China

    Xiao-feng Yang

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Contributions

YT, YZ and HP conceived the project. HP, JP, XY, XL and HL performed the experiments. YD, XY and HP analyzed the data, and HP and YT drafted and revised the manuscript. All authors have read and approved the final version of the manuscript.

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Correspondence to Hu Pan or Yun Tian.

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Zhang, Yf., Dai, Yn., Pu, Jf. et al. Pararhizobium qamdonense sp. nov., Isolated from an Alpine Soil in Tibet and the Reclassification of Rhizobium gei Shi et al. 2016 as Pararhizobium gei comb. nov.. Curr Microbiol 81, 44 (2024). https://doi.org/10.1007/s00284-023-03567-8

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