1887

Abstract

Thirteen novel, obligately anaerobic, thermoacidophilic bacteria were isolated from deep-sea hydrothermal vent sites. Four of the strains, designated EP5-r, KM1, Mar08-272r and Mar08-368r, were selected for metabolic and physiological characterization. With the exception of strain EP5-r, all strains were short rods that grew between 40 and 72 °C, with optimal growth at 60–65 °C. Strain EP5-r was more ovoid in shape and grew between 45 and 75 °C, with optimum growth at 60 °C. The pH range for growth of all the isolates was between pH 3.5 and 5.5 (optimum pH 4.5 to 5.0). Strain Mar08-272r could only grow up to pH 5.0. Elemental sulfur was required for heterotrophic growth on acetate, succinate, Casamino acids and yeast extract. Strains EP5-r, Mar08-272r and Mar08-368r could also use fumarate, while strains EP5-r, KM1 and Mar08-272r could also use propionate. All isolates were able to grow chemolithotrophically on H, CO, sulfur and vitamins. Phylogenetic analysis of 16S rRNA gene sequences placed all isolates within the family of the class , with the closest cultured relative being MH (~95–98 % gene sequence similarity). Phylogenetic analysis also identified several isolates with at least one intervening sequence within the 16S rRNA gene. The genomic DNA G+C contents of strains EP5-r, KM1, Mar08-272r and Mar08-368r were 37.1, 42.0, 35.6 and 37.9 mol%, respectively. The new isolates differed most significantly from MH in their phylogenetic placement and in that they were obligate thermoacidophiles. Based on these phylogenetic and phenotypic properties, the following two novel species are proposed: sp. nov. (type strain Mar08-272r = DSM 24585 = OCM 985) and sp. nov. (type strain EP5-r = DSM 24586 = OCM 986).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.033001-0
2012-06-01
2019-12-11
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/62/6/1252.html?itemId=/content/journal/ijsem/10.1099/ijs.0.033001-0&mimeType=html&fmt=ahah

References

  1. Altschul S. F. , Gish W. , Miller W. , Myers E. W. , Lipman D. J. . ( 1990; ). Basic local alignment search tool. . J Mol Biol 215:, 403–410.[PubMed] [CrossRef]
    [Google Scholar]
  2. Baker B. J. , Hugenholtz P. , Dawson S. C. , Banfield J. F. . ( 2003; ). Extremely acidophilic protists from acid mine drainage host Rickettsiales-lineage endosymbionts that have intervening sequences in their 16S rRNA genes. . Appl Environ Microbiol 69:, 5512–5518. [CrossRef] [PubMed]
    [Google Scholar]
  3. Bautista-Zapanta J. N. , Arafat H. H. , Tanaka K. , Sawada H. , Suzuki K. . ( 2009; ). Variation of 16S-23S internally transcribed spacer sequence and intervening sequence in rDNA among the three major Agrobacterium species. . Microbiol Res 164:, 604–612. [CrossRef] [PubMed]
    [Google Scholar]
  4. Dewhirst F. E. , Shen Z. , Scimeca M. S. , Stokes L. N. , Boumenna T. , Chen T. , Paster B. J. , Fox J. G. . ( 2005; ). Discordant 16S and 23S rRNA gene phylogenies for the genus Helicobacter: implications for phylogenetic inference and systematics. . J Bacteriol 187:, 6106–6118. [CrossRef] [PubMed]
    [Google Scholar]
  5. Dieci G. , Preti M. , Montanini B. . ( 2009; ). Eukaryotic snoRNAs: a paradigm for gene expression flexibility. . Genomics 94:, 83–88. [CrossRef] [PubMed]
    [Google Scholar]
  6. Glasauer S. , Langley S. , Boyanov M. , Lai B. , Kemner K. , Beveridge T. J. . ( 2007; ). Mixed-valence cytoplasmic iron granules are linked to anaerobic respiration. . Appl Environ Microbiol 73:, 993–996. [CrossRef] [PubMed]
    [Google Scholar]
  7. Götz D. , Banta A. , Beveridge T. J. , Rushdi A. I. , Simoneit B. R. , Reysenbach A. L. . ( 2002; ). Persephonella marina gen. nov., sp. nov. and Persephonella guaymasensis sp. nov., two novel, thermophilic, hydrogen-oxidizing microaerophiles from deep-sea hydrothermal vents. . Int J Syst Evol Microbiol 52:, 1349–1359. [CrossRef] [PubMed]
    [Google Scholar]
  8. Hunter R. C. , Beveridge T. J. . ( 2005; ). High-resolution visualization of Pseudomonas aeruginosa PAO1 biofilms by freeze-substitution transmission electron microscopy. . J Bacteriol 187:, 7619–7630. [CrossRef] [PubMed]
    [Google Scholar]
  9. Kuever J. , Rainey F. A. , Widdel F. . ( 2005; ). Class IV. Deltaproteobacteria class nov. . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn.. Volume 2. Edited by Brenner D. J. , Krieg N. R. , Staley J. T. . . New York:: Springer;. [CrossRef]
    [Google Scholar]
  10. Lane D. J. . ( 1991; ). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115–175. Edited by Stackebrandt E. , Goodfellow M. . . Chichester:: Wiley;.
    [Google Scholar]
  11. Ludwig W. , Strunk O. , Westram R. , Richter L. , Meier H. , Yadhukumar , Buchner A. , Lai T. , Steppi S. . & other authors ( 2004; ). arb: a software environment for sequence data. . Nucleic Acids Res 32:, 1363–1371. [CrossRef] [PubMed]
    [Google Scholar]
  12. Marmur J. , Doty P. . ( 1962; ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. . J Mol Biol 5:, 109–118. [CrossRef] [PubMed]
    [Google Scholar]
  13. Miroshnichenko M. L. , Rainey F. A. , Hippe H. , Chernyh N. A. , Kostrikina N. A. , Bonch-Osmolovskaya E. A. . ( 1998; ). Desulfurella kamchatkensis sp. nov. and Desulfurella propionica sp. nov., new sulfur-respiring thermophilic bacteria from Kamchatka thermal environments. . Int J Syst Bacteriol 48:, 475–479.[PubMed] [CrossRef]
    [Google Scholar]
  14. Miroshnichenko M. L. , Rainey F. A. , Rhode M. , Bonch-Osmolovskaya E. A. . ( 1999; ). Hippea maritima gen. nov., sp. nov., a new genus of thermophilic, sulfur-reducing bacterium from submarine hot vents. . Int J Syst Bacteriol 49:, 1033–1038. [CrossRef] [PubMed]
    [Google Scholar]
  15. Moussard H. , L’Haridon S. , Tindall B. J. , Banta A. , Schumann P. , Stackebrandt E. , Reysenbach A. L. , Jeanthon C. . ( 2004; ). Thermodesulfatator indicus gen. nov., sp. nov., a novel thermophilic chemolithoautotrophic sulfate-reducing bacterium isolated from the Central Indian Ridge. . Int J Syst Evol Microbiol 54:, 227–233. [CrossRef] [PubMed]
    [Google Scholar]
  16. Omer A. D. , Lowe T. M. , Russell A. G. , Ebhardt H. , Eddy S. R. , Dennis P. P. . ( 2000; ). Homologs of small nucleolar RNAs in Archaea. . Science 288:, 517–522. [CrossRef] [PubMed]
    [Google Scholar]
  17. Papke R. T. , Ramsing N. B. , Bateson M. M. , Ward D. M. . ( 2003; ). Geographical isolation in hot spring cyanobacteria. . Environ Microbiol 5:, 650–659. [CrossRef] [PubMed]
    [Google Scholar]
  18. Pitcher A. , Hopmans E. C. , Mosier A. C. , Park S.-J. , Rhee S.-K. , Francis C. A. , Schouten S. , Damsté J. S. . ( 2011; ). Core and intact polar glycerol dibiphytanyl glycerol tetraether lipids of ammonia-oxidizing archaea enriched from marine and estuarine sediments. . Appl Environ Microbiol 77:, 3468–3477. [CrossRef] [PubMed]
    [Google Scholar]
  19. Reysenbach A. L. , Flores G. E. . ( 2008; ). Electron microscopy encounters with unusual thermophiles helps direct genomic analysis of Aciduliprofundum boonei . . Geobiology 6:, 331–336. [CrossRef] [PubMed]
    [Google Scholar]
  20. Reysenbach A. L. , Longnecker K. , Kirshtein J. . ( 2000; ). Novel bacterial and archaeal lineages from an in situ growth chamber deployed at a Mid-Atlantic Ridge hydrothermal vent. . Appl Environ Microbiol 66:, 3798–3806. [CrossRef] [PubMed]
    [Google Scholar]
  21. Reysenbach A. L. , Liu Y. , Banta A. B. , Beveridge T. J. , Kirshtein J. D. , Schouten S. , Tivey M. K. , Von Damm K. L. , Voytek M. A. . ( 2006; ). A ubiquitous thermoacidophilic archaeon from deep-sea hydrothermal vents. . Nature 442:, 444–447. [CrossRef] [PubMed]
    [Google Scholar]
  22. Tamura K. , Dudley J. , Nei M. , Kumar S. . ( 2007; ). mega4: Molecular evolutionary genetics analysis (mega) software version 4.0. . Mol Biol Evol 24:, 1596–1599. [CrossRef] [PubMed]
    [Google Scholar]
  23. Tazumi A. , Kakinuma Y. , Misawa N. , Moore J. E. , Millar B. C. , Matsuda M. . ( 2009; ). Identification and characterization of intervening sequences within 23S rRNA genes from more than 200 Campylobacter isolates from seven species including atypical campylobacters. . BMC Microbiol 9:, 256. [CrossRef] [PubMed]
    [Google Scholar]
  24. Tazumi A. , Nakanishi S. , Meguro S. , Kakinuma Y. , Moore J. E. , Millar B. C. , Matsuda M. . ( 2010; ). Occurrence and characterisation of intervening sequences (IVSs) within 16S rRNA genes from two atypical Campylobacter species, C. sputorum and C. curvus . . Br J Biomed Sci 67:, 77–81.[PubMed]
    [Google Scholar]
  25. Teyssier C. , Marchandin H. , Siméon De Buochberg M. , Ramuz M. , Jumas-Bilak E. . ( 2003; ). Atypical 16S rRNA gene copies in Ochrobactrum intermedium strains reveal a large genomic rearrangement by recombination between rrn copies. . J Bacteriol 185:, 2901–2909. [CrossRef] [PubMed]
    [Google Scholar]
  26. Villemur R. , Constant P. , Gauthier A. , Shareck M. , Beaudet R. . ( 2007; ). Heterogeneity between 16S ribosomal RNA gene copies borne by one Desulfitobacterium strain is caused by different 100-200 bp insertions in the 5′ region. . Can J Microbiol 53:, 116–128. [CrossRef] [PubMed]
    [Google Scholar]
  27. Whitaker R. J. , Grogan D. W. , Taylor J. W. . ( 2003; ). Geographic barriers isolate endemic populations of hyperthermophilic archaea. . Science 301:, 976–978. [CrossRef] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.033001-0
Loading
/content/journal/ijsem/10.1099/ijs.0.033001-0
Loading

Data & Media loading...

Supplements

Supplementary material 

PDF

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