1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 65, Issue Pt_10

sp. nov., isolated from an abandoned lead-zinc mine Free

Abstract

An aerobic, non-motile and Gram-staining-positive bacterial strain (1PNM-19) was isolated from a lead-zinc ore in an abandoned mine and was investigated in a taxonomic study using a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain 1PNM-19 was affiliated to the genus and most closely related to DSM 23025 and DSM 19119. The major respiratory quinone was determined to be menaquinone 8 (MK-8) and the major fatty acids contained summed feature 3 (Cω7 and/or Cω6) and C. A complex polar lipid profile consisted of different unidentified glycolipids and polar lipids, two unidentified aminolipids, an unidentified phosphoglycolipid, phospholipid and aminophospholipid. The genomic DNA G+C content of strain 1PNM-19 was 71.7 ± 0.1 mol%. Based on data from this taxonomic study, strain 1PNM-19 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is 1PNM-19 ( = GIMCC 1.654 = CCTCC AB 2014198 = DSM 27521).

  • Published Online:
Funding
This study was supported by the:
  • Science and Technology Planning Project of Guangdong Province (Award 31200006)
  • Guangdong Natural Science Foundation (Award 31070103)
© 2015 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.000439
2015-10-01
2024-04-18
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/10/3457.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.000439&mimeType=html&fmt=ahah

References

  1. Brooks B.W., Murray R.G.E. ( 1981;). Nomenclature for “Micrococcus radiodurans” and other radiation-resistant cocci: Deinococcaceae fam. nov. and Deinococcus gen. nov., including five species. Int J Syst Bacteriol 31 353–360 [View Article].
     [Google Scholar]
  2. Buck J.D. ( 1982;). Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44 992–993 [PubMed].
     [Google Scholar]
  3. Callegan R.P., Nobre M.F., McTernan P.M., Battista J.R., Navarro-González R., McKay C.P., da Costa M.S., Rainey F.A. ( 2008;). Description of four novel psychrophilic, ionizing radiation-sensitive Deinococcus species from alpine environments. Int J Syst Evol Microbiol 58 1252–1258 [View Article] [PubMed].
     [Google Scholar]
  4. Cha S., Srinivasan S., Seo T., Kim M.K. ( 2014a;). Deinococcus soli sp. nov., a gamma-radiation-resistant bacterium isolated from rice field soil. Curr Microbiol 68 777–783 [View Article] [PubMed].
     [Google Scholar]
  5. Cha S., Srinivasan S., Seo T., Kim M.K. ( 2014b;). Deinococcus radiotolerans sp. nov., a gamma-radiation-resistant bacterium isolated from gamma ray-irradiated soil. Antonie van Leeuwenhoek 105 229–235 [View Article] [PubMed].
     [Google Scholar]
  6. Collins M.D., Pirouz T., Goodfellow M., Minnikin D.E. ( 1977;). Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100 221–230 [View Article] [PubMed].
     [Google Scholar]
  7. de Groot A., Chapon V., Servant P., Christen R., Saux M.F., Sommer S., Heulin T. ( 2005;). Deinococcus deserti sp. nov., a gamma-radiation-tolerant bacterium isolated from the Sahara Desert. Int J Syst Evol Microbiol 55 2441–2446 [View Article] [PubMed].
     [Google Scholar]
  8. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368–376 [View Article] [PubMed].
     [Google Scholar]
  9. Felsenstein J. ( 1985;). Confidence limit on phylogenies: an approach using the bootstrap. Evolution 39 783–791 [View Article].
     [Google Scholar]
  10. Feng G.D., Yang S.Z., Wang Y.H., Zhao G.Z., Deng M.R., Zhu H.H. ( 2014;). Sphingomonas gimensis sp. nov., a novel Gram-negative bacterium isolated from abandoned lead-zinc ore mine. Antonie van Leeuwenhoek 105 1091–1097 [View Article] [PubMed].
     [Google Scholar]
  11. Ferreira A.C., Nobre M.F., Rainey F.A., Silva M.T., Wait R., Burghardt J., Chung A.P., da Costa M.S. ( 1997;). Deinococcus geothermalis sp. nov. and Deinococcus murrayi sp. nov., two extremely radiation-resistant and slightly thermophilic species from hot springs. Int J Syst Bacteriol 47 939–947 [View Article] [PubMed].
     [Google Scholar]
  12. Hiraishi A., Ueda Y., Ishihara J., Mori T. ( 1996;). Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 42 457–469 [View Article].
     [Google Scholar]
  13. Im W.T., Jung H.M., Ten L.N., Kim M.K., Bora N., Goodfellow M., Lim S., Jung J., Lee S.T. ( 2008;). Deinococcus aquaticus sp. nov., isolated from fresh water, and Deinococcus caeni sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 58 2348–2353 [View Article] [PubMed].
     [Google Scholar]
  14. Kim O.S., Cho Y.J., Lee K., Yoon S.H., Kim M., Na H., Park S.C., Jeon Y.S., Lee J.H., other authors. ( 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]. [CrossRef]
    [Google Scholar]
  15. Kim M., Oh H.S., Park S.C., Chun J. ( 2014;). Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 64 346–351 [View Article] [PubMed].
     [Google Scholar]
  16. 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 [View Article] [PubMed].
     [Google Scholar]
  17. Mesbah M., Premachandran U., Whitman W.B. ( 1989;). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39 159–167 [View Article].
     [Google Scholar]
  18. Oyaizu H., Stackebrandt E., Schleifer K.H., Ludwig W., Pohla H., Ito H., Hirata A., Oyaizu Y., Komagata K. ( 1987;). A radiation-resistant rod-shaped bacterium, Deinobacter grandis gen. nov., sp. nov., with peptidoglycan containing ornithine. Int J Syst Bacteriol 37 62–67 [View Article].
     [Google Scholar]
  19. Rainey F.A., Ray K., Ferreira M., Gatz B.Z., Nobre M.F., Bagaley D., Rash B.A., Park M.J., Earl A.M., other authors. ( 2005;). Extensive diversity of ionizing-radiation-resistant bacteria recovered from Sonoran Desert soil and description of nine new species of the genus Deinococcus obtained from a single soil sample. Appl Environ Microbiol 71 5225–5235 [View Article] [PubMed].
     [Google Scholar]
  20. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406–425 [PubMed].
     [Google Scholar]
  21. Sasser M. ( 1990). Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI Inc;.
     [Google Scholar]
  22. Stackebrandt E., Ebers J. ( 2006;). Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 33 152–155.
     [Google Scholar]
  23. Suresh K., Reddy G.S., Sengupta S., Shivaji S. ( 2004;). Deinococcus indicus sp. nov., an arsenic-resistant bacterium from an aquifer in West Bengal, India. Int J Syst Evol Microbiol 54 457–461 [View Article] [PubMed].
     [Google Scholar]
  24. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011;). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28 2731–2739 [View Article] [PubMed].
     [Google Scholar]
  25. Tindall B.J., Sikorski J., Smibert R.A., Krieg N.R. ( 2007;). Phenotypic characterization and the principles of comparative systematics. . In Methods for General and Molecular Microbiology , 3rd edn., pp. 330–393. Edited by Reddy C. A., Beveridge T. J., Breznak J. A., Marzluf G., Schmidt T. M., Snyder L. R. Washington, DC: American Society for Microbiology; [View Article].
     [Google Scholar]
  26. Yarza P., Yilmaz P., Pruesse E., Glöckner F.O., Ludwig W., Schleifer K.H., Whitman W.B., Euzéby J., Amann R., Rosselló-Móra R. ( 2014;). Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences. Nat Rev Microbiol 12 635–645 [View Article] [PubMed].
     [Google Scholar]
  27. Yoo S.H., Weon H.Y., Kim S.J., Kim Y.S., Kim B.Y., Kwon S.W. ( 2010;). Deinococcus aerolatus sp. nov. and Deinococcus aerophilus sp. nov., isolated from air samples. Int J Syst Evol Microbiol 60 1191–1195 [View Article] [PubMed].
     [Google Scholar]
  28. Zhang Y.Q., Sun C.H., Li W.J., Yu L.Y., Zhou J.Q., Zhang Y.Q., Xu L.H., Jiang C.L. ( 2007;). Deinococcus yunweiensis sp. nov., a gamma- and UV-radiation-resistant bacterium from China. Int J Syst Evol Microbiol 57 370–375 [View Article] [PubMed].
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.000439
Loading
Deinococcus metalli sp. nov., isolated from an abandoned lead-zinc mine
Int J Syst Evol Microbiol 65, 3457 (2015); https://doi.org/10.1099/ijsem.0.000439
/content/journal/ijsem/10.1099/ijsem.0.000439
/content/journal/ijsem/10.1099/ijsem.0.000439
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF

Most cited Most Cited RSS feed

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error