1887

Abstract

A Gram-stain-negative, non-flagellated, rod-shaped bacterium, designated strain T22, was isolated from rhizosphere soil of , collected from Xinjiang, China. Its major fatty acids (>5 %) were iso-C, Cω5, iso-C-3OH, summed feature 1 (C 3-OH/iso-C H) and summed feature 3 (Cω6/Cω7). The predominant respiratory quinone was MK-7. The major polar lipids were phosphatidylethanolamine, two aminolipids and four unidentified lipids. The DNA G+C content of the type strain was 53.4 mol%. According to phylogenetic analysis based on 16S rRNA gene sequences, strain T22 was related most closely to YLT18 (=CCTCC AB 2015054) with similarity of 97.7 %. However, strain T22 was clearly distinguished from YLT18 using genome-to-genome distance and average nucleotide identity value calculation, as well as a range of physiological and biochemical characteristics comparisons. It is obvious from the genotypic and phenotypic data that strain T22 represents a novel species of the genus , for which the name sp. nov., is proposed. The type strain is T22 (=ACCC 60125=KCTC 62518).

Funding
This study was supported by the:
  • Natural Science Foundation of Beijing Municipality (Award 6164042)
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2019-02-18
2024-03-28
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References

  1. Sangkhobol V, Skerman VBD. Chitinophaga, a new genus of chitinolytic myxobacteria. Int J Syst Bacteriol 1981; 31:285–293 [View Article]
    [Google Scholar]
  2. Li N, Chen T, Cheng D, Xu XJ, He J. Chitinophaga sedimenti sp. nov., isolated from sediment. Int J Syst Evol Microbiol 2017; 67:3485–3489 [View Article][PubMed]
    [Google Scholar]
  3. Hyeon JW, Lee HJ, Jeong SE, Cho GY, Jeon CO. Niveitalea solisilvae gen. nov., sp. nov., isolated from forest soil and emended description of the genus Flavihumibacter Zhang et al. 2010. Int J Syst Evol Microbiol 2017; 67:1374–1380 [View Article][PubMed]
    [Google Scholar]
  4. Lv YY, Zhang XJ, Li AZ, Zou WL, Feng GD et al. Chitinophaga varians sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 2018; 68:2139–2144 [View Article][PubMed]
    [Google Scholar]
  5. Lv YY, Wang J, You J, Qiu LH. Chitinophaga dinghuensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2015; 65:4816–4822 [View Article][PubMed]
    [Google Scholar]
  6. Zhang L, Liao S, Tan Y, Wang G, Wang D et al. Chitinophaga barathri sp. nov., isolated from mountain soil. Int J Syst Evol Microbiol 2015; 65:4233–4238 [View Article][PubMed]
    [Google Scholar]
  7. Lin SY, Hameed A, Liu YC, Hsu YH, Lai WA et al. Chitinophaga taiwanensis sp. nov., isolated from the rhizosphere of Arabidopsis thaliana . Int J Syst Evol Microbiol 2014; 64:426–430 [View Article][PubMed]
    [Google Scholar]
  8. Lee JC, Whang KS. Chitinophaga ginsengihumi sp. nov., isolated from soil of ginseng rhizosphere. Int J Syst Evol Microbiol 2014; 64:2599–2604 [View Article][PubMed]
    [Google Scholar]
  9. Kim SJ, Cho H, Ahn JH, Weon HY, Joa JH et al. Chitinophaga rhizosphaerae sp. nov., isolated from rhizosphere soil of a tomato plant. Int J Syst Evol Microbiol 2017; 67:3435–3439 [View Article][PubMed]
    [Google Scholar]
  10. Jin D, Kong X, Wang J, Sun J, Yu X et al. Chitinophaga caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2018; 68:2209–2213 [View Article][PubMed]
    [Google Scholar]
  11. Gao S, Zhang WB, Sheng XF, He LY, Huang Z. Chitinophaga longshanensis sp. nov., a mineral-weathering bacterium isolated from weathered rock. Int J Syst Evol Microbiol 2015; 65:418–423 [View Article][PubMed]
    [Google Scholar]
  12. Yasir M, Chung EJ, Song GC, Bibi F, Jeon CO et al. Chitinophaga eiseniae sp. nov., isolated from vermicompost. Int J Syst Evol Microbiol 2011; 61:2373–2378 [View Article][PubMed]
    [Google Scholar]
  13. Proença DN, Nobre MF, Morais PV. Chitinophaga costaii sp. nov., an endophyte of Pinus pinaster, and emended description of Chitinophaga niabensis . Int J Syst Evol Microbiol 2014; 64:1237–1243 [View Article][PubMed]
    [Google Scholar]
  14. von Bülow JF, Döbereiner J. Potential for nitrogen fixation in maize genotypes in Brazil. Proc Natl Acad Sci USA 1975; 72:2389–2393 [View Article][PubMed]
    [Google Scholar]
  15. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics New York: John Wiley and Sons; 1991 pp. 115–175
    [Google Scholar]
  16. Yoon SH, Ha SM, 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 [View Article][PubMed]
    [Google Scholar]
  17. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: Molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  18. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed]
    [Google Scholar]
  19. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  20. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
    [Google Scholar]
  21. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  22. Tamura K, Nei M, Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci USA 2004; 101:11030–11035 [View Article][PubMed]
    [Google Scholar]
  23. Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol Biol Evol 1993; 10:512–526 [View Article][PubMed]
    [Google Scholar]
  24. Nei M, Kumar S. Molecular Evolution and Phylogenetics New York: Oxford University Press; 2000
    [Google Scholar]
  25. 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 Meth 1984; 2:233–241 [View Article]
    [Google Scholar]
  26. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Method Microbiol 1987; 19:161–207
    [Google Scholar]
  27. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  28. Auch AF, von Jan M, Klenk HP, Göker M. Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2010; 2:117–134 [View Article][PubMed]
    [Google Scholar]
  29. Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article][PubMed]
    [Google Scholar]
  30. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article][PubMed]
    [Google Scholar]
  31. Weon HY, Yoo SH, Kim YJ, Son JA, Kim BY et al. Chitinophaga niabensis sp. nov. and Chitinophaga niastensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2009; 59:1267–1271 [View Article][PubMed]
    [Google Scholar]
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