1887

Abstract

A novel bacterial strain, designated AK13 (=KACC 21401=DSM 109981), was isolated from the rhizosphere of . Strain AK13 was found to be an aerobic, Gram-stain–positive, endospore-forming and rod-shaped bacterium. It formed yellow circular colonies with smooth convex surfaces. The genomic DNA G+C content of strain AK13 was estimated to be 40 mol%. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that this strain was most closely related to MLB2 (99.4 %), K11 (98.8 %) and PAT 05 (96.6 %). The average nucleotide identity values between strain AK13 and MLB2, K11 and PAT 05 were 90.93, 91.05 and 71.87 %, respectively, with the digital DNA–DNA hybridization values of 42.7, 42.6 and 18.8 %, respectively. Cells grew at 5–40 °C (optimum, 28–35 °C), pH 6.5–13 (optimum, pH 8–9) and in the presence of 0–13.0 % (w/v) NaCl (optimum, 1 %). The cell wall of strain AK13 contained -diaminopimelic acid, and the major isoprenoid quinone was MK-7. Results of fatty acid methyl ester analysis revealed that iso-C was the predominant cellular fatty acid. Two-dimensional thin-layer chromatography analysis indicated that the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and glycolipid. The genotypic and phenotypic characteristics suggested that strain AK13 represented a novel species of the genus , and thus the name sp. nov. is proposed.

Funding
This study was supported by the:
  • Byoung-Hee Lee , National Institute of Biological Resources , (Award NIBR201902111)
  • Woojun Park , Ministry of Land, Infrastructure and Transport , (Award 19SCIP-B103706-05)
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2020-01-17
2021-03-08
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References

  1. Cohn F. Untersuchungen über Bakterien. Beitr Biol Pflanz 1872; 1:127–224
    [Google Scholar]
  2. Priest FG, Goodfellow M, Todd C. A numerical classification of the genus Bacillus . Microbiology 1988; 134:1847–1882 [CrossRef]
    [Google Scholar]
  3. Kämpfer P. Limits and possibilities of total fatty acid analysis for classification and identification of Bacillus species. Syst Appl Microbiol 1994; 17:86–98 [CrossRef]
    [Google Scholar]
  4. Liu Y, Lai Q, Shao Z. Genome analysis-based reclassification of Bacillus weihenstephanensis as a later heterotypic synonym of Bacillus mycoides . Int J Syst Evol Microbiol 2018; 68:106–112 [CrossRef]
    [Google Scholar]
  5. Sun Q-L, Yu C, Luan Z-D, Lian C, Hu Y-H et al. Description of Bacillus kexueae sp. nov. and Bacillus manusensis sp. nov., isolated from hydrothermal sediments. Int J Syst Evol Microbiol 2018; 68:829–834 [CrossRef]
    [Google Scholar]
  6. Ma K, Yin Q, Chen L, Lai Q, Xu Y. Bacillus acanthi sp. nov., isolated from the rhizosphere soil of a mangrove plant Acanthus ilicifolius. Int J Syst Evol Microbiol 2018; 68:3047–3051 [CrossRef]
    [Google Scholar]
  7. Kim HJ, Eom HJ, Park C, Jung J, Shin B et al. Calcium carbonate precipitation by Bacillus and Sporosarcina strains isolated from concrete and analysis of the bacterial community of concrete. J Microbiol Biotechnol 2016; 26:540–548 [CrossRef]
    [Google Scholar]
  8. Zhao H. Mechanism of Biomineralization Induced by Bacillus subtilis J2 and Characteristics of the Biominerals. Minerals 2019; 9:218
    [Google Scholar]
  9. Kämpfer P, Busse H-J, McInroy JA, Hu C-H, Kloepper JW et al. Bacillus zeae sp. nov., isolated from the rhizosphere of Zea mays . Int J Syst Evol Microbiol 2017; 67:1241–1246 [CrossRef]
    [Google Scholar]
  10. Zhang M-Y, Cheng J, Cai Y, Zhang T-Y, Wu Y-Y et al. Bacillus notoginsengisoli sp. nov., a novel bacterium isolated from the rhizosphere of Panax notoginseng . Int J Syst Evol Microbiol 2017; 67:2581–2585 [CrossRef]
    [Google Scholar]
  11. Díez-Méndez A, Rivas R, Mateos PF, Martínez-Molina E, Santín PJ et al. Bacillus terrae sp. nov. isolated from Cistus ladanifer rhizosphere soil. Int J Syst Evol Microbiol 2017; 67:1478–1481 [CrossRef]
    [Google Scholar]
  12. Ma K, Yin Q, Chen L, Lai Q, Xu Y. Bacillus acanthi sp. nov., isolated from the rhizosphere soil of a mangrove plant Acanthus ilicifolius . Int J Syst Evol Microbiol 2018; 68:3047–3051 [CrossRef]
    [Google Scholar]
  13. Liu B, Liu G-H, Wang X-Y, Wang J-P, Zhu Y-J et al. Bacillus populi sp. nov. isolated from Populus euphratica rhizosphere soil of the Taklamakan desert. Int J Syst Evol Microbiol 2018; 68:155–159 [CrossRef]
    [Google Scholar]
  14. Lee YS, Park W. Enhanced calcium carbonate-biofilm complex formation by alkali-generating Lysinibacillus boronitolerans YS11 and alkaliphilic Bacillus sp. AK13. AMB Express 2019; 9:49 [CrossRef]
    [Google Scholar]
  15. Lee YS, Kim HJ, Park W. Non-ureolytic calcium carbonate precipitation by Lysinibacillus sp. YS11 isolated from the rhizosphere of Miscanthus sacchariflorus . J Microbiol 2017; 55:440–447 [CrossRef]
    [Google Scholar]
  16. Ghosh A, Bhardwaj M, Satyanarayana T, Khurana M, Mayilraj S et al. Bacillus lehensis sp. nov., an alkalitolerant bacterium isolated from soil. Int J Syst Evol Microbiol 2007; 57:238–242 [CrossRef]
    [Google Scholar]
  17. Yumoto I, Hirota K, Goto T, Nodasaka Y, Nakajima K. Bacillus oshimensis sp. nov., a moderately halophilic, non-motile alkaliphile. Int J Syst Evol Microbiol 2005; 55:907–911 [CrossRef]
    [Google Scholar]
  18. Olivera N, Siñeriz F, Breccia JD. Bacillus patagoniensis sp. nov., a novel alkalitolerant bacterium from the rhizosphere of Atriplex lampa in Patagonia, Argentina. Int J Syst Evol Microbiol 2005; 55:443–447 [CrossRef]
    [Google Scholar]
  19. Frank JA, Reich CI, Sharma S, Weisbaum JS, Wilson BA et al. Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes. Appl Environ Microbiol 2008; 74:2461–2470 [CrossRef]
    [Google Scholar]
  20. Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T et al. The Silva ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res 2013; 41:D590–D596 [CrossRef]
    [Google Scholar]
  21. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [CrossRef]
    [Google Scholar]
  22. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [CrossRef]
    [Google Scholar]
  23. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 2018; 35:1547–1549 [CrossRef]
    [Google Scholar]
  24. Tamura K, Nei M, Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci U S A 2004; 101:11030–11035 [CrossRef]
    [Google Scholar]
  25. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically United database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [CrossRef]
    [Google Scholar]
  26. STACKEBRANDT E, Goebel BM. 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 1994; 44:846–849 [CrossRef]
    [Google Scholar]
  27. Chen P, Yan L, Wu Z, Li S, Bai Z et al. A microbial transformation using Bacillus subtilis B7-S to produce natural vanillin from ferulic acid. Sci Rep 2016; 6:20400 [CrossRef]
    [Google Scholar]
  28. Ling HL, Rahmat Z, Bakar FDA, Murad AMA, Illias RM. Secretome analysis of alkaliphilic bacterium Bacillus lehensis G1 in response to pH changes. Microbiol Res 2018; 215:46–54 [CrossRef]
    [Google Scholar]
  29. Hiraishi A, Ueda Y, Ishihara J, Mori T. Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 1996; 42:457–469 [CrossRef]
    [Google Scholar]
  30. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983; 29:319–322 [CrossRef]
    [Google Scholar]
  31. Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 1974; 28:226–231
    [Google Scholar]
  32. Sasser M. Bacterial identification by gas chromatographic analysis of fatty acids methyl esters (GC-FAME). MIDI Technical Note 1990; 1502:101
    [Google Scholar]
  33. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [CrossRef]
    [Google Scholar]
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