1887

Abstract

A Gram-stain-positive, strictly aerobic and rod-shaped bacterium, designated as 3 H-10, was isolated from a yellow water sample collected from the manufacturing process of strong flavor Chinese baijiu in Yibin region of Sichuan province (PR China). Oval endospores were formed at the subtermini of cells with swollen sporangia. The isolate was able to grow at temperatures of 20–45 °C (optimum growth at 37 °C), at pH 6.0–10.0 (optimum growth at pH 8.0) and in the presence of 0–2 % (w/v) NaCl (optimum growth with 0 % NaCl). Ribose was the major cell-wall sugar, and -diaminopimelic acid (-DAP) was the diagnostic amino acid. The main polar lipids of 3 H-10 included diphosphatidylglycerol (DPG), phosphatidylglycerol (PG) and phosphatidylethanolamine (PE). MK-7 was predominant menaquinone and iso-C (60.7 %) was the major fatty acid. Comparisons of 16S rRNA gene sequence indicated that 3 H-10 was most closely related to SA4 (96.30 %), Gsoil 114 (96.27 %) and LMG 18435 (96.27 %). The average nucleotide identity (ANI) values between strain 3 H-10 and the three type strains mentioned above were 69.56, 70.19 and 70.67 %, respectively. The genomic DNA G+C content was 35.4 mol%. On the basis of its phenotypic, chemotaxonomic and phylogenetic properties, strain 3 H-10 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is 3 H-10 (=CICC 24755=JCM 33703).

Funding
This study was supported by the:
  • Lei Zhai , Open Foundation of Key Laboratory of Wuliangye -flavor Liquor Solid-state Fermentation, China National Light Industry , (Award 2018JJ022)
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2020-05-04
2020-06-04
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References

  1. Logan NA, De Vos P et al. Genus Bacillus . In De Vos P, Garrity G, Jones D, Krieg NR, Ludwig W et al. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed. New York: Springer; 2009 pp 21–128
    [Google Scholar]
  2. Logan NA, Halket G. Developments in the taxonomy of the aerobic, endospore-forming bacteria. In Logan NA, De Vos P. (editors) Aerobic, Endospore-forming Soil Bacteria Berlin: Springer-Verlag; 2011 pp 1-–29
    [Google Scholar]
  3. Pal D, Mathan Kumar R, Kaur N, Kumar N, Kaur G et al. Bacillus maritimus sp. nov., a novel member of the genus Bacillus isolated from marine sediment. Int J Syst Evol Microbiol 2017; 67:60–66 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  4. Tidjani Alou M, Rathored J, Traore SI, Khelaifia S, Michelle C et al. Bacillus niameyensis sp. nov., a new bacterial species isolated from human gut. New Microbes New Infect 2015; 8:61–69 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  5. Guo J, Wang YQ, Yang G, Chen Y, Zhou S et al. Bacillus nitroreducens sp. nov., a humus-reducing bacterium isolated from a compost. Arch Microbiol 2016; 198:347–352 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  6. Pan T, He H, Wang X, Shen Y, Zhao J et al. Bacillus solisilvae sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 2017; 67:4449–4455 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  7. Zou W, Zhao C, Luo H. Diversity and function of microbial community in Chinese strong-flavor Baijiu ecosystem: a review. Front Microbiol 2018; 9:671–686 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  8. Zhou Y-X, Liu G-H, Liu B, Chen G-J, Du Z-J. Bacillus mesophilus sp. nov., an alginate-degrading bacterium isolated from a soil sample collected from an abandoned marine solar saltern. Antonie van Leeuwenhoek 2016; 109:937–943 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  9. Lee M, Ten LN, Baek S-H, Im W-T, Aslam Z et al. Paenibacillus ginsengihumi sp. nov., a novel bacterium isolated from soil of a ginseng field in Pocheon Province, South Korea. Antonie van Leeuwenhoek 2007; 91:127–135 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  10. Logan NA, Lebbe L, Verhelst A, Goris J, Forsyth G et al. Bacillus shackletonii sp. nov., from volcanic soil on Candlemas Island, South Sandwich archipelago. Int J Syst Evol Microbiol 2004; 54:373–376 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  11. Tang X, Zhai L, Lin Y, Yao S, Wang L et al. Halomonas alkalicola sp. nov., isolated from a household product plant. Int J Syst Evol Microbiol 2017; 67:1546–1550 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  12. Gerhardt P, Murray RGE, Wood WA, Krieg NR. Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994
    [Google Scholar]
  13. Gregersen T. Rapid method for distinction of Gram-negative from Gram-positive bacteria. European J Appl Microbiol 1978; 5:123–127 [CrossRef]
    [Google Scholar]
  14. Yao S, Liu Y, Zhang M, Zhang X, Li H et al. Thermoactinomyces daqus sp. nov., a thermophilic bacterium isolated from high-temperature Daqu. Int J Syst Evol Microbiol 2014; 64:206–210 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  15. Yao S, Zhai L, Xin C, Liu Y, Xu L et al. Scopulibacillus daqui sp. nov., a thermophilic bacterium isolated from high temperature daqu. Int J Syst Evol Microbiol 2016; 66:4723–4728 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  16. Park S-K, Kim M-S, Jung M-J, Nam Y-D, Park E-J et al. Brachybacterium squillarum sp. nov., isolated from salt-fermented seafood. Int J Syst Evol Microbiol 2011; 61:1118–1122 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  17. Smibert RM, Krieg NR et al. General characterization. In Gerhardt P, Murray RGE, Costilow RN, Nester EW, Wood WA et al. (editors) Manual of Methods for General Bacteriology Washington, DC: American Society for Microbiology; 1981 pp 409–443
    [Google Scholar]
  18. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematic England: John. Willey and Sons Ltd; 1991 pp 115–175
    [Google Scholar]
  19. 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]
  20. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [CrossRef][PubMed][PubMed]
    [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][PubMed][PubMed]
    [Google Scholar]
  22. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  23. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Biol 1971; 20:406–416 [CrossRef]
    [Google Scholar]
  24. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  25. Li R, Li Y, Kristiansen K, Wang J. Soap: short oligonucleotide alignment program. Bioinformatics 2008; 24:713–714 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  26. Li R, Zhu H, Ruan J, Qian W, Fang X et al. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 2010; 20:265–272 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  27. Chen Y, Chen Y, Shi C, Huang Z, Zhang Y et al. SOAPnuke: a MapReduce acceleration-supported software for integrated quality control and preprocessing of high-throughput sequencing data. Gigascience 2018; 7:1–6 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  28. Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M et al. SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 2012; 19:455–477 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  29. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  30. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  31. Romano I, Nicolaus B, Lama L, Trabasso D, Caracciolo G et al. Accumulation of osmoprotectants and lipid pattern modulation in response to growth conditions by Halomonas pantelleriense . Syst Appl Microbiol 2001; 24:342–352 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  32. 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]
  33. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  34. Groth I, Schumann P, Weiss N, Martin K, Rainey FA. Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Bacteriol 1996; 46:234–239 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  35. Tindall BJ, Rosselló-Móra R, Busse H-J, Ludwig W, Kämpfer P. Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 2010; 60:249–266 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  36. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [CrossRef][PubMed][PubMed]
    [Google Scholar]
  37. 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]
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