1887

Abstract

Two aerobic bacterial strains, designated SP1PR4 and SP1PR5, were isolated from tundra soil samples collected from Saana fjeld, North-western Finland (69° 03′ N 20° 50′ E). Cells of both strains were Gram-negative, non-motile rods. Phylogenetic analysis indicated that the strains belong to the genus in subdivision 1 of the phylum Strains SP1PR4 and SP1PR5 shared identical BOX and ERIC fingerprints and 99.7 % 16S rRNA gene similarity indicating that, together with their identical physiological features, these strains are members of the same species. The 16S rRNA gene sequence similarity of SP1PR4 and SP1PR5 with DSM 18391 was 97.1 %. A low DNA–DNA hybridization value (<20 %) and gene sequence similarity (83.6 %) with DSM 18391 indicated that the tundra soil isolates represent novel members of the genus . Strains SP1PR4 and SP1PR5 grew at pH 4.5–7.5 and 4–30 °C. Sugars were the preferred growth substrates. The major cellular fatty acids were iso-C, Cω7, iso-C and C. The DNA G+C content of strain SP1PR4 was 57.3 mol%. Based on phylogenetic, chemotaxonomic and physiological analyses, the name sp. nov. is proposed to accommodate the two strains; the type strain is SP1PR4 ( = DSM 23119  = ATCC BAA-1853).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.026005-0
2011-08-01
2019-12-14
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/61/8/1823.html?itemId=/content/journal/ijsem/10.1099/ijs.0.026005-0&mimeType=html&fmt=ahah

References

  1. Adékambi T. , Shinnick T. M. , Raoult D. , Drancourt M. . ( 2008; ). Complete rpoB gene sequencing as a suitable supplement to DNA–DNA hybridization for bacterial species and genus delineation. . Int J Syst Evol Microbiol 58:, 1807–1814. [CrossRef].[PubMed]
    [Google Scholar]
  2. Altschul S. F. , Madden T. L. , Schäffer A. A. , Zhang J. , Zhang Z. , Miller W. , Lipman D. J. . ( 1997; ). Gapped blast and psi-blast: a new generation of protein database search programs. . Nucleic Acids Res 25:, 3389–3402. [CrossRef].[PubMed]
    [Google Scholar]
  3. Barns S. M. , Cain E. C. , Sommerville L. , Kuske C. R. . ( 2007; ). Acidobacteria phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum. . Appl Environ Microbiol 73:, 3113–3116. [CrossRef].[PubMed]
    [Google Scholar]
  4. Bozzola J. J. , Russell L. D. . ( 1991; ). Electron Microscopy: Principles and Techniques for Biologists. Boston, London, Singapore:: Jones and Bartlett Publishers;.
    [Google Scholar]
  5. Campbell B. J. , Polson S. W. , Hanson T. E. , Mack M. C. , Schuur E. A. . ( 2010; ). The effect of nutrient deposition on bacterial communities in Arctic tundra soil. . Environ Microbiol 12:, 1842–1854. [CrossRef].[PubMed]
    [Google Scholar]
  6. Cashion P. , Holder-Franklin M. A. , McCully J. , Franklin M. . ( 1977; ). A rapid method for the base ratio determination of bacterial DNA. . Anal Biochem 81:, 461–466. [CrossRef].[PubMed]
    [Google Scholar]
  7. Coates J. D. , Ellis D. J. , Gaw C. V. , Lovley D. R. . ( 1999; ). Geothrix fermentans gen. nov., sp. nov., a novel Fe(III)-reducing bacterium from a hydrocarbon-contaminated aquifer. . Int J Syst Bacteriol 49:, 1615–1622. [CrossRef].[PubMed]
    [Google Scholar]
  8. Eichorst S. A. , Breznak J. A. , Schmidt T. M. . ( 2007; ). Isolation and characterization of soil bacteria that define Terriglobus gen. nov., in the phylum Acidobacteria . . Appl Environ Microbiol 73:, 2708–2717. [CrossRef].[PubMed]
    [Google Scholar]
  9. Fukunaga Y. , Kurahashi M. , Yanagi K. , Yokota A. , Harayama S. . ( 2008; ). Acanthopleuribacter pedis gen. nov., sp. nov., a marine bacterium isolated from a chiton, and description of Acanthopleuribacteraceae fam. nov., Acanthopleuribacterales ord. nov., Holophagaceae fam. nov., Holophagales ord. nov. and Holophagae classis nov. in the phylum ‘Acidobacteria’. . Int J Syst Evol Microbiol 58:, 2597–2601. [CrossRef].[PubMed]
    [Google Scholar]
  10. Galtier N. , Gouy M. , Gautier C. . ( 1996; ). seaview and phylo_win: two graphic tools for sequence alignment and molecular phylogeny. . Comput Appl Biosci 12:, 543–548.[PubMed]
    [Google Scholar]
  11. Hayt M. A. . ( 1981; ). Fixation for Electron Microscopy. New York:: Academic Press;.
    [Google Scholar]
  12. Huß V. A. R. , Festl H. , Schleifer K. H. . ( 1983; ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. . Syst Appl Microbiol 4:, 184–192.[CrossRef]
    [Google Scholar]
  13. Janssen P. H. . ( 2006; ). Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. . Appl Environ Microbiol 72:, 1719–1728. [CrossRef].[PubMed]
    [Google Scholar]
  14. Jones R. T. , Robeson M. S. , Lauber C. L. , Hamady M. , Knight R. , Fierer N. . ( 2009; ). A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses. . ISME J 3:, 442–453. [CrossRef].[PubMed]
    [Google Scholar]
  15. Kerkhof L. , Ward B. B. . ( 1993; ). Comparison of nucleic acid hybridization and fluorometry for measurement of the relationship between RNA/DNA ratio and growth rate in a marine bacterium. . Appl Environ Microbiol 59:, 1303–1309.[PubMed]
    [Google Scholar]
  16. Kishimoto N. , Kosako Y. , Tano T. . ( 1991; ). Acidobacterium capsulatum gen. nov., sp. nov. an acidophilic chemoorganotrophic bacterium containing menaquinone from acidic mineral environment. . Curr Microbiol 22:, 1–7. [CrossRef]
    [Google Scholar]
  17. Koch I. H. , Gich F. , Dunfield P. F. , Overmann J. . ( 2008; ). Edaphobacter modestus gen. nov., sp. nov., and Edaphobacter aggregans sp. nov., acidobacteria isolated from alpine and forest soils. . Int J Syst Evol Microbiol 58:, 1114–1122. [CrossRef].[PubMed]
    [Google Scholar]
  18. Kulichevskaya I. S. , Suzina N. E. , Liesack W. , Dedysh S. N. . ( 2010; ). Bryobacter aggregatus gen. nov., sp. nov., a peat-inhabiting, aerobic chemo-organotroph from subdivision 3 of the Acidobacteria . . Int J Syst Evol Microbiol 60:, 301–306. [CrossRef].[PubMed]
    [Google Scholar]
  19. 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]
  20. Liesack W. , Bak F. , Kreft J. U. , Stackebrandt E. . ( 1994; ). Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds. . Arch Microbiol 162:, 85–90. [CrossRef].[PubMed]
    [Google Scholar]
  21. Männistö M. K. , Häggblom M. M. . ( 2006; ). Characterization of psychrotolerant heterotrophic bacteria from Finnish Lapland. . Syst Appl Microbiol 29:, 229–243. [CrossRef].[PubMed]
    [Google Scholar]
  22. Männistö M. K. , Tiirola M. , Häggblom M. M. . ( 2007; ). Bacterial communities in Arctic fjelds of Finnish Lapland are stable but highly pH-dependent. . FEMS Microbiol Ecol 59:, 452–465. [CrossRef].[PubMed]
    [Google Scholar]
  23. Männistö M. K. , Tiirola M. , Häggblom M. M. . ( 2009; ). Effect of freeze–thaw cycles on bacterial communities of arctic tundra soil. . Microb Ecol 58:, 621–631. [CrossRef].[PubMed]
    [Google Scholar]
  24. Männistö M. K. , Tiirola M. , McConnell J. , Häggblom M. M. . ( 2010; ). Mucilaginibacter frigoritolerans sp. nov., Mucilaginibacter lappiensis sp. nov. and Mucilaginibacter mallensis sp. nov., isolated from soil and lichen samples. . Int J Syst Evol Microbiol, 60:, 2849–2556.[CrossRef]
    [Google Scholar]
  25. 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. [CrossRef]
    [Google Scholar]
  26. Murray R. G. E. , Doetsch R. N. , Robinow C. F. . ( 1994; ). Determinative and cytological light microscopy. . In Methods for General and Molecular Bacteriology, pp. 21–41. Edited by Gerhardt P. , Murray R. G. E. , Wood W. A. , Krieg N. R. . . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  27. Pankratov T. A. , Dedysh S. N. . ( 2010; ). Granulicella paludicola gen. nov., sp. nov., Granulicella pectinivorans sp. nov., Granulicella aggregans sp. nov. and Granulicella rosea sp. nov., acidophilic, polymer-degrading acidobacteria from Sphagnum peat bogs. . Int J Syst Evol Microbiol 60:, 2951–2959. [CrossRef].[PubMed]
    [Google Scholar]
  28. Pankratov T. A. , Serkebaeva Y. M. , Kulichevskaya I. S. , Liesack W. , Dedysh S. N. . ( 2008; ). Substrate-induced growth and isolation of Acidobacteria from acidic Sphagnum peat. . ISME J 2:, 551–560. [CrossRef].[PubMed]
    [Google Scholar]
  29. Rademaker J. L. W. , De Bruijn F. J. . ( 1997; ). Characterization and classification of microbes by rep-PCR genomic fingerprinting and computer-assisted pattern analysis. . In DNA Markers: Protocols, Applications and Overviews, pp. 151–171. Edited by Caetano-Anollés G. , Gresshoff P. M. . . New York:: Wiley;.
    [Google Scholar]
  30. Rademaker J. L. W. , Hoste B. , Louws F. J. , Kersters K. , Swings J. , Vauterin L. , Vauterin P. , de Bruijn F. J. . ( 2000; ). Comparison of AFLP and rep-PCR genomic fingerprinting with DNA-DNA homology studies: Xanthomonas as a model system. . Int J Syst Evol Microbiol 50:, 665–677.[PubMed] [CrossRef]
    [Google Scholar]
  31. Sait M. , Hugenholtz P. , Janssen P. H. . ( 2002; ). Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys. . Environ Microbiol 4:, 654–666. [CrossRef].[PubMed]
    [Google Scholar]
  32. 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]
  33. Thompson J. D. , Gibson T. J. , Plewniak F. , Jeanmougin F. , Higgins D. G. . ( 1997; ). The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. . Nucleic Acids Res 25:, 4876–4882. [CrossRef].[PubMed]
    [Google Scholar]
  34. Ward N. L. , Challacombe J. F. , Janssen P. H. , Henrissat B. , Coutinho P. M. , Wu M. , Xie G. , Haft D. H. , Sait M. et al. ( 2009; ). Three genomes from the phylum Acidobacteria provide insight into the lifestyles of these microorganisms in soils. . Appl Environ Microbiol 75:, 2046–2056. [CrossRef].[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.026005-0
Loading
/content/journal/ijsem/10.1099/ijs.0.026005-0
Loading

Data & Media loading...

Supplements

vol. , part 8, pp. 1823 - 1828

Box- and Eric-PCR fingerprints of strains SP1PR4 , SP1PR5 and DSM18391 . Lanes: 1, SP1PR4 ; 2, SP1PR5; 3, DSM18391 . M, molecular weight marker MassRulerTN DNA ladder mix (Fermentas).



IMAGE

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