Vulcaniibacterium tengchongense gen. nov., sp. nov. isolated from a geothermally heated soil sample, and reclassification of Lysobacter thermophilus Wei et al. 2012 as Vulcaniibacterium thermophilum comb. nov.

Abstract

A thermotolerant Gram-staining negative and aerobic bacterium, designated strain YIM 77520T, was isolated from a geothermally heated soil sample collected at Rehai National Park, Tengchong, Yunnan Province, South-West China. Cells of the strain were found to be rod-shaped and colonies were light beige and circular. The strain was found to grow in the presence of 0–2 % (w/v) total salts (optimum, 0 %), at pH 6.0–8.0 (optimum, pH 7.0) and 25–55 °C (optimum, 45 °C). The only quinone detected was Q-8 and the genomic DNA G+C content was determined to be 66.9 mol%. The major fatty acids (>10 %) were identified as iso-C16:0 and iso-C15:0. The phospholipids were found to consist of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, five unknown phospholipids and three aminophospholipids. Based on the 16S rRNA gene sequence analysis, strain YIM 77520T was found to form a cluster with Lysobacter thermophilus YIM 77875T and showed the highest 16S rRNA gene sequence similarity to L. thermophilus YIM 77875T (96.0 %). These two strains formed a distinct lineage of the family ‘Xanthomonadaceae’. On the basis of the morphological and chemotaxonomic characteristics, as well as genotypic data, a new genus, Vulcaniibacterium gen. nov. is proposed with Vulcaniibacterium tengchongense sp. nov. as the type species. The type strain of V. tengchongense sp. nov. is strain YIM 77520T (=DSM 25623T = CCTCC AB 2011152T). Furthermore we propose that L. thermophilus Wei et al. 2012 is reclassified in the new genus as Vulcaniibacterium thermophilum comb. nov. (type strain YIM 77875T = CCTCC AB 2012064T = KCTC 32020T) based on polyphasic data.

This is a preview of subscription content, access via your institution.

Fig. 1

References

  1. Bae HS, Im WT, Lee ST (2005) Lysobacter concretionis sp. nov., isolated from anaerobic granules in an upflow anaerobic sludge blanket reactor. Int J Syst Evol Microbiol 55:1155–1161

    PubMed  Article  CAS  Google Scholar 

  2. Busse H-J, Kämpfer P, Moore ERB (2002) Thermomonas haemolytica gen. nov., sp. nov., a γ-proteobacterium from kaolin slurry. Int J Syst Evol Microbiol 52:473–483

    PubMed  CAS  Google Scholar 

  3. Cerny G (1978) Studies on aminopeptidase for the distinction of Gram-negative from Gram-positive bacteria. Appl Microbiol Biotechnol 5:113–122

    Article  CAS  Google Scholar 

  4. Chen MY, Tsay SS, Chen KY, Shi YC, Lin YT, Lin GH (2002) Pseudoxanthomonas taiwanensis sp. nov., a novel thermophilic, N2O-producing species isolated from hot springs. Int J Syst Evol Microbiol 52:2155–2161

    PubMed  Article  CAS  Google Scholar 

  5. Christensen P, Cook FD (1978) Lysobacter, a new genus of nonfruiting, gliding bacteria with a high base ratio. Int J Syst Bacteriol 28:367–393

    Article  Google Scholar 

  6. Collins MD, Jones D (1980) Lipids in the classification and identification of coryneform bacteria containing peptidoglycan based on 2, 4-diaminobutyric acid. Appl Bacteriol 48:459–470

    Article  CAS  Google Scholar 

  7. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230

    PubMed  Article  CAS  Google Scholar 

  8. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376

    PubMed  Article  CAS  Google Scholar 

  9. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  10. Finkmann W, Altendorf K, Stackebrandt E, Lipski A (2000) Characterization of N2O-producing Xanthomonas-like isolates from biofilters as Stenotrophomonas nitritireducens sp. nov., Luteimonas mephitis gen. nov., sp. nov. and Pseudoxanthomonas broegbernensis gen. nov., sp. nov. Int J Syst Evol Microbiol 50:273–282

    PubMed  Article  CAS  Google Scholar 

  11. Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  12. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH, Yi H, Won S, Chun J (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

    PubMed  Article  CAS  Google Scholar 

  13. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120

    PubMed  Article  CAS  Google Scholar 

  14. Kroppenstedt RM (1982) Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5:2359–2387

    Article  CAS  Google Scholar 

  15. Li WJ, Xu P, Schumann P, Zhang YQ, Pukall R, Xu LH, Stackebrandt E, Jiang CL (2007) Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China) and emended description of the genus Georgenia. Int J Syst Evol Microbiol 57:1424–1428

    PubMed  Article  Google Scholar 

  16. Liu M, Liu Y, Wang Y, Luo X, Dai J, Fang C (2011) Lysobacter xinjiangensis sp. nov., a moderately thermotolerant and alkalitolerant bacterium isolated from gamma-irradiated sand soil sample. Int J Syst Evol Microbiol 61:433–437

    PubMed  Article  CAS  Google Scholar 

  17. Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167

    Article  CAS  Google Scholar 

  18. Minnikin DE, Collins MD, Goodfellow M (1979) Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95

    Article  CAS  Google Scholar 

  19. Palleroni NJ (1984) Genus I. Pseudomonas Migula 1894, 237AL. In: Krieg NR, Holt JG (eds) Bergey’s Manual of Systematic Bacteriology, vol 1. Williams and Wilkins, Baltimore, pp 141–199

    Google Scholar 

  20. Palleroni NJ, Bradbury JF (1993) Stenotrophomonas, a new bacterial genus for Xanthomonas maltophilia (Hugh 1980) Swings et al. 1983. Int J Syst Bacteriol 43:606–609

    PubMed  Article  CAS  Google Scholar 

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

    PubMed  CAS  Google Scholar 

  22. Sullivan RF, Holtman MA, Zylstra GJ, White JF Jr, Kobayashi DY (2003) Taxonomic positioning of two biological control agents for plant diseases as Lysobacter enzymogenes based on phylogenetic analysis of 16S rDNA, fatty acid composition and phenotypic characteristics. J Appl Microbiol 94:1079–1086

    PubMed  Article  CAS  Google Scholar 

  23. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, ang Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739

    PubMed  Article  CAS  Google Scholar 

  24. Tóth E, Kovács G, Schumann P, Kovács AL, Steiner U, Halbritterá A, Márialigeti K (2001) Schineria larvae gen. nov., sp. nov., isolated from the 1st and 2nd larval stages of Wohlfahrtia magnifica (Diptera: sarcophagidae). Int J Syst Evol Microbiol 51:401–407

    PubMed  Google Scholar 

  25. Vauterin L, Hoste B, Kersters K, Swings J (1995) Reclassification of Xanthomonas. Int J Syst Bacteriol 45:472–489

    Article  CAS  Google Scholar 

  26. Vauterin L, Yang P, Swings J (1996) Utilization of fatty acid methyl esters for the differentiation of new Xanthomonas species. Int J Syst Bacteriol 46:298–304

    Article  CAS  Google Scholar 

  27. Wei DQ, Yu TT, Yao JC, Zhou EM, Song ZQ, Yin YR, Ming H, Tang SK, Li WJ (2012) Lysobacter thermophilus sp. nov., isolated from a geothermal soil sample in Tengchong, south-west China. Antonie Van Leeuwenhoek. doi:10.1007/s10482-012-9761-8

    Google Scholar 

  28. Wells JM, Raju BC, Hung HY, Weisburg WG, MandelcoPaul L, Brenner J (1987) Xylella fastidiosa gen. nov., sp. nov. Gram-negative, xylem-limited, fastidious plant bacteria related to Xanthomonas spp. Int J Syst Bacteriol 37:136–143

    Article  CAS  Google Scholar 

  29. Xu P, Li WJ, Tang SK, Zhang YQ, Chen GZ, Chen HH, Xu LH, Jiang CL (2005) Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family Oxalobacteraceae isolated from China. Int J Syst Evol Microbiol 55:1149–1153

    PubMed  Article  CAS  Google Scholar 

  30. Ziegler S, Waidner B, Itoh T, Schumann P, Spring S, Gescher J (2013) Metallibacterium scheffleri gen. nov., sp. nov., an alkalinizing gammaproteobacterium isolated from an acidic biofilm. Int J Syst Evol Microbiol 63:1499–1504

    PubMed  Article  Google Scholar 

Download references

Acknowledgments

The authors are grateful to Prof. Jean Euzéby (SBSV and ENVT, France) for the Latin construction of the species name. This research was supported by the Key Project of International Cooperation of Ministry of Science & Technology (MOST) (No. 2013DFA31980), Natural Science Foundation of China (No. 31070007), Research Project of Education Department of Henan Province of China (2011A180025), Henan Provincial Undergraduate Training Programs for Innovation and Entrepreneurship (2011060), and National Science Foundation grant (OISE-0968421). W-J Li was also supported by ‘Hundred Talents Program’ of the Chinese Academy of Sciences.

Author information

Affiliations

Authors

Corresponding authors

Correspondence to Guo-Xing Nie or Wen-Jun Li.

Additional information

Tian-Tian Yu and En-Min Zhou have contributed equally to this work.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOCX 494 kb)

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Yu, TT., Zhou, EM., Yin, YR. et al. Vulcaniibacterium tengchongense gen. nov., sp. nov. isolated from a geothermally heated soil sample, and reclassification of Lysobacter thermophilus Wei et al. 2012 as Vulcaniibacterium thermophilum comb. nov.. Antonie van Leeuwenhoek 104, 369–376 (2013). https://doi.org/10.1007/s10482-013-9959-4

Download citation

Keywords

  • Vulcaniibacterium gen. nov.
  • Vulcaniibacterium tengchongense sp. nov.
  • Vulcaniibacterium thermophilum comb. nov.
  • Rehai National Park