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Aquamicrobium zhengzhouense sp. nov., a Bacterium Isolated from Farmland Soil Applied with Amino Acid Fertilizer

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Abstract

A novel Gram-stain-negative, rod-shaped, strictly aerobic, non-motile bacterium, designated strain cd-1T, was isolated from a farmland soil applied with amino acid fertilizer in Zhengzhou, Henan province, China. The optimum growth of strain cd-1T occurred at 30 °C, pH 7.0 in Luria–Bertani (LB) broth without NaCl supplement. Phylogenetic analysis based on 16S rRNA gene sequences indicated that cd-1T is member of the genus Aquamicrobium, and formed a separate branch with Aquamicrobium aerolatum DSM 21857T (96.5%) and Aquamicrobium soli KCTC 52165T (95.7%). The draft genome sequencing revealed a DNA G + C content of 59.2 mol% and Q-10 was the predominant respiratory quinone. The major cellular fatty acids were identified as C18:1 ω7c (35.8%), C19:0 cyclo ω8c (32.1%), and C18:1 ω7c 11-methyl (5.2%). The polar lipids consisted of phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine and phosphatidylmonomethylethanolamine. Average nucleotide identity (ANI) and the digital DNA-DNA hybridizations (dDDH) for draft genomes between strain cd-1T and KCTC 52165T were 71.0% and 19.9%, respectively, the values for strain cd-1T and DSM 21857T were 73.4% and 20.6%. Based on the physiological and biochemical characteristics, phylogenetic and chemotaxonomic analysis, strain cd-1T is considered to represent a novel species of the genus Aquamicrobium, for which the name Aquamicrobium zhengzhouense sp. nov. is proposed. The type strain is cd-1T (= KCTC 82182T = CCTCC M 2018904T).

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References

  1. Bambauer A, Rainey FA, Stackebrandt E, Winter J (1998) Characterization of Aquamicrobium defluvii gen. nov. sp. nov., a thiophene-2-carboxylate-metabolizing bacterium from activated sludge. Arch Microbiol 169:293–302

    Article  CAS  PubMed  Google Scholar 

  2. Kampfer P, Martin E, Lodders N, Jackel U (2009) Transfer of Defluvibacter lusatiensis to the genus Aquamicrobium as Aquamicrobium lusatiense comb. nov. and description of Aquamicrobium aerolatum sp. nov. Int J Syst Evol Microbiol 59:2468–2470

    Article  PubMed  Google Scholar 

  3. Jin HM, Kim JM, Jeon CO (2013) Aquamicrobium aestuarii sp. nov., a marine bacterium isolated from a tidal flat. Int J Syst Evol Microbiol 63:4012–4017

    Article  CAS  PubMed  Google Scholar 

  4. Lipski A, Kämpfer P (2012) Aquamicrobium ahrensii sp. nov. and Aquamicrobium segne sp. nov., isolated from experimental biofilters. Int J Syst Evol Microbiol 62:2511–2516

    Article  CAS  PubMed  Google Scholar 

  5. Xu C, Zhang L, Huang J, Chen K, Li S, Jiang J (2017) Aquamicrobium soli sp. nov., a bacterium isolated from a chlorobenzoate-contaminated soil. Anton Leeuw Int J G 110:305–312

    Article  CAS  Google Scholar 

  6. Wu Z, Wang F, Gu C, Zhang Y, Yang Z, Wu X, Jiang X (2014) Aquamicrobium terrae sp. nov., isolated from the polluted soil near a chemical factory. Anton Leeuw Int J G 105:1131–1137

    Article  CAS  Google Scholar 

  7. Marchesi JR, Sato T, Weightman AJ, Martin TA, Fry JC, Hiom SJ, Wade WG (1998) Design and evaluation of useful bacterium-specific PCR primers that amplify genes coding for bacterial 16S rRNA. Appl Environ Microbiol 64:795–799

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  8. Kim OS, Cho Y, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon Y, Lee JH, Yi H (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721

    Article  CAS  PubMed  Google Scholar 

  9. Thompson JD, Gibson TJ, Frédéric P, Franois J, Higgins DG (1997) The clustal_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  10. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA 6.0: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  11. Saitou N, Nei M (1987) The neighbor-joining methods: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

  12. Fitch Walter M (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Biol 20:406–416

    Article  Google Scholar 

  13. Felsenstein J (2013) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376

    Article  Google Scholar 

  14. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Evol Microbiol 44:846–849

    Article  CAS  Google Scholar 

  15. Bernardet J, Nakagawa Y, Holmes B (2002) Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52:1049–1070

    CAS  PubMed  Google Scholar 

  16. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of Menaquinones in Actinomycetes and Corynebacteria. J Gen Microbiol 100:221–230

    Article  CAS  PubMed  Google Scholar 

  17. Li R, Zhu H, Ruan J, Qian W, Fang X, Shi Z, Li Y, Li S, Shan G, Kristiansen K (2010) De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 20:265–272

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  18. Meier-Kolthoff JP, Auch AF, Klenk H, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform 14:60–60

    Article  Google Scholar 

  19. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR, Costa MSD, Rooney AP, Yi H, Xu X, De Meyer SE (2018) Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 68:461–466

    Article  CAS  PubMed  Google Scholar 

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Funding

Key research and development projects in Anhui Province Grant No. (202004f06020049). Major Science and Technology Projects in Anhui Province Grant No. (18030701214). Natural Science Foundation of the Anhui Higher Education Institutions of China Grant Nos. (KJ2020A0050, KJ2018A0530). Anhui Province University Student Innovation and Entrepreneurship Training Program Project Grant No. (S201910879040). Stable Talent Project of Anhui Science and Technology University.

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  1. College of Resource and Environment, Anhui Science and Technology University, Huainan, Anhui, China

    Xiang Wang, Chun-Fu Zhou, Jia-Rong Cheng, Sheng-Fei Cao, Hong-Xing Yang & Jian-Rong Zhao

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  1. Xiang Wang
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  2. Chun-Fu Zhou
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Correspondence to Jian-Rong Zhao.

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Wang, X., Zhou, CF., Cheng, JR. et al. Aquamicrobium zhengzhouense sp. nov., a Bacterium Isolated from Farmland Soil Applied with Amino Acid Fertilizer. Curr Microbiol 78, 3798–3803 (2021). https://doi.org/10.1007/s00284-021-02600-y

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