1887

Abstract

An obligately anaerobic, sulfate-reducing micro-organism, strain 3127-1, was isolated from geothermally heated soil (Oil Site, Uzon Caldera, Kamchatka, Russia). The new isolate was a moderately thermoacidophilic anaerobe able to grow with H or formate by respiration of sulfate or thiosulfate. The pH range for growth was 3.7–6.5, with an optimum at 4.8–5.0. The temperature range for growth was 37–65 °C, with an optimum at 55 °C. The G+C content of the genomic DNA was 33.7 mol%. The genome of strain 3127-1 contained two almost identical 16S rRNA genes, differing by a single nucleotide substitution. The closest 16S rRNA gene sequence of a validly published species belonged to Na82 (99.5 % similarity). However, the average nucleotide identity of the genomes of strain 3127-1 and Na82 and the predicted DNA–DNA hybridization value (GGDC 2.1 , formula 2) were as low as 86 and 32.5±2.5 %, respectively. This, together with phenotypic data, showed the new isolate to belong to a novel species, for which the name sp. nov. is proposed. The type strain is 3127-1 (=DSM 102892=VKM B-3043).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001745
2017-05-01
2020-04-04
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/5/1482.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001745&mimeType=html&fmt=ahah

References

  1. Muyzer G, Stams AJ. The ecology and biotechnology of sulphate-reducing bacteria. Nat Rev Microbiol 2008;6:441–454 [CrossRef][PubMed]
    [Google Scholar]
  2. Mori K, Kim H, Kakegawa T, Hanada S. A novel lineage of sulfate-reducing microorganisms: Thermodesulfobiaceae fam. nov., Thermodesulfobium narugense, gen. nov., sp. nov., a new thermophilic isolate from a hot spring. Extremophiles 2003;7:283–290 [CrossRef][PubMed]
    [Google Scholar]
  3. Ludwig K, Schleifer K-H, Whitman WB. Revised road map to the phylum Firmicutes. In Boone DR, Castenholz RW, Garrity GM. (editors) Bergey’s Manual of Systematic Bacteriology, 2nd ed.vol. 3 New York: Springer; 2009; pp.1–13
    [Google Scholar]
  4. Zhang W, Lu Z. Phylogenomic evaluation of members above the species level within the phylum Firmicutes based on conserved proteins. Environ Microbiol Rep 2015;7:273–281 [CrossRef][PubMed]
    [Google Scholar]
  5. Kunisawa T. Evolutionary relationships of completely sequenced clostridia species and close relatives. Int J Syst Evol Microbiol 2015;65:4276–4283 [CrossRef][PubMed]
    [Google Scholar]
  6. Frolov EN, Merkel AY, Pimenov NV, Khvashchevskaya AA, Bonch-Osmolovskaya EA et al. Sulfate reduction and inorganic carbon assimilation in acidic thermal springs of the Kamchatka Peninsula. Microbiology 2016;85:471–480 [CrossRef]
    [Google Scholar]
  7. Dobretsov NL, Lazareva EV, Zhmodik SM, Bryanskaya AV, Morozova VV et al. Geological, hydrogeochemical, and microbiological characteristics of the Oil site of the Uzon caldera (Kamchatka). Russ Geol Geophys 2015;56:39–63 [CrossRef]
    [Google Scholar]
  8. Kevbrin V, Zavarzin G. Effect of sulfur compounds on the growth of the halophilic homoacetogenic bacterium Acetohalobium arabaticum. Microbiology 1992;61:563–567
    [Google Scholar]
  9. Wolin EA, Wolin MJ, Wolfe RS. Formation of methane by bacterial extracts. J Biol Chem 1963;238:2882–2888[PubMed]
    [Google Scholar]
  10. Trueper HG, Schlegel HG. Sulphur metabolism in Thiorhodaceae. I. quantitative measurements on growing cells of Chromatium okenii. Antonie van Leeuwenhoek 1964;30:225–238 [CrossRef][PubMed]
    [Google Scholar]
  11. Slobodkina GB, Panteleeva AN, Kostrikina NA, Kopitsyn DS, Bonch-Osmolovskaya EA et al. Tepidibacillus fermentans gen. nov., sp. nov.: a moderately thermophilic anaerobic and microaerophilic bacterium from an underground gas storage. Extremophiles 2013;17:833–839 [CrossRef][PubMed]
    [Google Scholar]
  12. 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]
    [Google Scholar]
  13. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012;62:716–721 [CrossRef][PubMed]
    [Google Scholar]
  14. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007;57:81–91 [CrossRef][PubMed]
    [Google Scholar]
  15. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009;106:19126–19131 [CrossRef][PubMed]
    [Google Scholar]
  16. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M, Gӧker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60 [CrossRef][PubMed]
    [Google Scholar]
  17. Tindall BJ, Rosselló-Móra R, Busse HJ, 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]
    [Google Scholar]
  18. Overbeek R, Olson R, Pusch GD, Olsen GJ, Davis JJ et al. The SEED and the rapid annotation of microbial genomes using subsystems technology (RAST). Nucleic Acids Res 2014;42:D206–D214 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001745
Loading
/content/journal/ijsem/10.1099/ijsem.0.001745
Loading

Data & Media loading...

Most cited this month

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