1887

Abstract

A psychrotolerant strain, 8H1, was isolated from soil samples collected in Isla de los Estados, Ushuaia, Argentina. Cells were Gram-negative, aerobic, straight rods, occurring singly or in pairs, non-spore-forming and motile by means of two polar flagella. The isolate was able to grow in the range 4–35 °C, with optimum growth at 28 °C. The predominant cellular fatty acids were summed feature 3 (Cω6 and/or Cω7), C and summed feature 8 (Cω6 and/or Cω7). The polar lipid pattern of strain 8H1 comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and an unknown phospholipid. Ubiquinone 9 (Q-9) was the predominant lipoquinone. The DNA G+C content was 59.8 mol%. 16S rRNA gene sequence-based phylogeny suggested the affiliation of strain 8H1 to the ‘ group’, displaying ≥98.5 % sequence similarity to 29 type strains. A multilocus sequence analysis (MLSA) study performed by concatenating 16S rRNA, , and gene sequences showed that isolate 8H1 could be discriminated from closely related species of the genus and placed in the ‘ subgroup’, including the species with the highest MLSA sequence similarities: (96.2 %), (96.1 %), (96.0 %), (96.0 %) and (95.4 %). DNA–DNA hybridization analysis between 8H1 and the type strains of these closely related species revealed relatedness values of 27.0, 8.8, 41.2, 39.7 and 46.1 %, respectively. These results, together with differences in several phenotypic features, support the classification of a novel species, for which the name sp. nov. is proposed. The type strain is 8H1 ( = DSM 26522 = CCUG 63249 = LMG 27247).

Funding
This study was supported by the:
  • CONICET, Argentina (Award PIP 0460)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.065201-0
2015-02-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/65/2/424.html?itemId=/content/journal/ijsem/10.1099/ijs.0.065201-0&mimeType=html&fmt=ahah

References

  1. Ait Tayeb L., Ageron E., Grimont F., Grimont P. A. D. ( 2005 ). Molecular phylogeny of the genus Pseudomonas based on rpoB sequences and application for the identification of isolates. . Res Microbiol 156, 763773. [View Article] [PubMed]
    [Google Scholar]
  2. Amoozegar M. A., Shahinpei A., Sepahy A. A., Makhdoumi-Kakhki A., Seyedmahdi S. S., Schumann P., Ventosa A. ( 2014 ). Pseudomonas salegens sp. nov., a halophilic member of the genus Pseudomonas isolated from a wetland. . Int J Syst Evol Microbiol 64, 35653570. [View Article] [PubMed]
    [Google Scholar]
  3. Anzai Y., Kim H., Park J.-Y., Wakabayashi H., Oyaizu H. ( 2000 ). Phylogenetic affiliation of the pseudomonads based on 16S rRNA sequence. . Int J Syst Evol Microbiol 50, 15631589. [View Article] [PubMed]
    [Google Scholar]
  4. Baïda N., Yazourh A., Singer E., Izard D. ( 2001 ). Pseudomonas brenneri sp. nov., a new species isolated from natural mineral waters. . Res Microbiol 152, 493502. [View Article] [PubMed]
    [Google Scholar]
  5. Baïda N., Yazourh A., Singer E., Izard D. ( 2002 ). Pseudomonas grimontii sp. nov.. Int J Syst Evol Microbiol 52, 14971503. [View Article] [PubMed]
    [Google Scholar]
  6. Brosius J., Palmer M. L., Kennedy P. J., Noller H. F. ( 1978 ). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli . . Proc Natl Acad Sci U S A 75, 48014805. [View Article] [PubMed]
    [Google Scholar]
  7. Campos V. L., Valenzuela C., Yarza P., Kämpfer P., Vidal R., Zaror C., Mondaca M.-A., Lopez-Lopez A., Rosselló-Móra R. ( 2010 ). Pseudomonas arsenicoxydans sp nov., an arsenite-oxidizing strain isolated from the Atacama desert. . Syst Appl Microbiol 33, 193197. [View Article] [PubMed]
    [Google Scholar]
  8. 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, 461466. [View Article] [PubMed]
    [Google Scholar]
  9. Cole J. R., Wang Q., Fish J. A., Chai B., McGarrell D. M., Sun Y., Brown C. T., Porras-Alfaro A., Kuske C. R., Tiedje J. M. ( 2014 ). Ribosomal Database Project: data and tools for high throughput rRNA analysis. . Nucleic Acids Res 42 (Database issue), D633D642. [View Article] [PubMed]
    [Google Scholar]
  10. De Ley J., Cattoir H., Reynaerts A. ( 1970 ). The quantitative measurement of DNA hybridization from renaturation rates. . Eur J Biochem 12, 133142. [View Article] [PubMed]
    [Google Scholar]
  11. De Vos P., Van Landschoot A., Segers P., Tytgat R., Gillis M., Bauwens M., Rossau R., Goor M., Pot B. & other authors ( 1989 ). Genotypic relationships and taxonomic localisation of unclassified Pseudomonas and Pseudomonas-like strains by deoxyribonucleic acid : ribosomal ribonucleic acid hybridizations. . Int J Syst Bacteriol 39, 3549. [View Article]
    [Google Scholar]
  12. Euzéby J. P. ( 1997 ). List of Bacterial Names with Standing in Nomenclature: a folder available on the Internet. . Int J Syst Bacteriol 47, 590592. [View Article] [PubMed]
    [Google Scholar]
  13. Fredericq P. ( 1948 ). Actions antibiotiques réciproques chez les Enterobacteriaceae . . Rev Belg Pathol Med Exp 4, 1107 (in French).
    [Google Scholar]
  14. Gavini F., Holmes B., Izard D., Beji A., Bernigaud A., Jakubczak E. ( 1989 ). Numerical taxonomy of Pseudomonas alcaligenes, P. pseudoalcaligenes, P. mendocina, P. stutzeri, and related bacteria. . Int J Syst Bacteriol 39, 135144. [View Article]
    [Google Scholar]
  15. Gratia A. ( 1946 ). Techniques sélectives pour la recherché systématique des germes antibiotiques. . C R Soc Biol 140, 10531055 (in French).
    [Google Scholar]
  16. Hirota K., Yamahira K., Nakajima K., Nodasaka Y., Okuyama H., Yumoto I. ( 2011 ). Pseudomonas toyotomiensis sp. nov., a psychrotolerant facultative alkaliphile that utilizes hydrocarbons. . Int J Syst Evol Microbiol 61, 18421848. [View Article] [PubMed]
    [Google Scholar]
  17. 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, 184192. [View Article] [PubMed]
    [Google Scholar]
  18. Jeon Y. S., Chung H., Park S., Hur I., Lee J. H., Chun J. ( 2005 ). jPHYDIT: a java-based integrated environment for molecular phylogeny of ribosomal RNA sequences. . Bioinformatics 21, 31713173. [View Article] [PubMed]
    [Google Scholar]
  19. Kämpfer P., Glaeser S. P. ( 2012 ). Prokaryotic taxonomy in the sequencing era–the polyphasic approach revisited. . Environ Microbiol 14, 291317. [View Article] [PubMed]
    [Google Scholar]
  20. Karnovsky M. J. ( 1965 ). A formaldehyde-glutaraldehyde fixative of high osmolarity for use in electron microscopy. . J Cell Biol 27, 137138.
    [Google Scholar]
  21. 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, 716721. [View Article] [PubMed]
    [Google Scholar]
  22. López J. R., Diéguez A. L., Doce A., De la Roca E., De la Herran R., Navas J. I., Toranzo A. E., Romalde J. L. ( 2012 ). Pseudomonas baetica sp. nov., a fish pathogen isolated from wedge sole, Dicologlossa cuneata (Moreau). . Int J Syst Evol Microbiol 62, 874882. [View Article] [PubMed]
    [Google Scholar]
  23. Lysenko O. ( 1961 ). Pseudomonas – an attempt at a general classification. . J Gen Microbiol 25, 379408. [View Article] [PubMed]
    [Google Scholar]
  24. 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, 159167. [View Article]
    [Google Scholar]
  25. MIDI ( 2008 ). Sherlock Microbial Identification System Operating Manual, version 6.1. Newark, DE:: MIDI Inc;.
    [Google Scholar]
  26. Migula W. ( 1894 ). Über ein neues System der Bakterien. . Arb Bakteriol Inst Karlsruhe 1, 235238 (in German).
    [Google Scholar]
  27. Mulet M., Bennasar A., Lalucat J., García-Valdés E. ( 2009 ). An rpoD-based PCR procedure for the identification of Pseudomonas species and for their detection in environmental samples. . Mol Cell Probes 23, 140147. [View Article] [PubMed]
    [Google Scholar]
  28. Mulet M., Lalucat J., García-Valdés E. ( 2010 ). DNA sequence-based analysis of the Pseudomonas species. . Environ Microbiol 12, 15131530.[PubMed]
    [Google Scholar]
  29. Mulet M., Gomila M., Lemaitre B., Lalucat J., García-Valdés E. ( 2012 ). Taxonomic characterisation of Pseudomonas strain L48 and formal proposal of Pseudomonas entomophila sp. nov.. Syst Appl Microbiol 35, 145149. [View Article] [PubMed]
    [Google Scholar]
  30. Myers E. W., Miller W. ( 1988 ). Optimal alignments in linear space. . Comput Appl Biosci 4, 1117.[PubMed]
    [Google Scholar]
  31. Nawrocki E. P., Kolbe D. L., Eddy S. R. ( 2009 ). Infernal 1.0: inference of RNA alignments. . Bioinformatics 25, 13351337. [View Article] [PubMed]
    [Google Scholar]
  32. Oyaizu H., Komagata K. ( 1983 ). Grouping of Pseudomonas species on the basis of cellular fatty acid composition and the quinone system with special reference to the existence of 3-hydroxy fatty acids. . J Gen Appl Microbiol 29, 1740. [View Article]
    [Google Scholar]
  33. Palleroni N. J. ( 1984 ). Genus I. Pseudomonas Migula 1894, 237AL (nom. cons. Opin. 5 of the Jud. Comm. 1952, 237). . In Bergey’s Manual of Systematic Bacteriology, vol. 1, pp. 141199. Edited by Krieg N. R., Holt J. G. . Baltimore:: Williams & Wilkins;.
    [Google Scholar]
  34. Palleroni N. J. ( 2005 ). Genus I. Pseudomonas Migula 1894, 237AL (nom. cons., Opin. 5 of the Jud. Comm. 1952, 121). . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 2B, pp. 323379. Edited by Boone D. R., Brenner D. J., Castenholz R. W., Garrity G. M., Krieg N. R., Staley J. T. . New York:: Springer;.
    [Google Scholar]
  35. Palleroni N. J., Kunisawa R., Contopoulou R., Doudoroff M. ( 1973 ). Nucleic acid homologies in the genus Pseudomonas . . Int J Syst Bacteriol 23, 333339. [View Article]
    [Google Scholar]
  36. Park Y.-D., Lee H. B., Yi H., Kim Y., Bae K. S., Choi J.-E., Jung H. S., Chun J. ( 2005 ). Pseudomonas panacis sp. nov., isolated from the surface of rusty roots of Korean ginseng. . Int J Syst Evol Microbiol 55, 17211724. [View Article] [PubMed]
    [Google Scholar]
  37. Pascual J., Lucena T., Ruvira M. A., Giordano A., Gambacorta A., Garay E., Arahal D. R., Pujalte M. J., Macián M. C. ( 2012 ). Pseudomonas litoralis sp. nov., isolated from Mediterranean seawater. . Int J Syst Evol Microbiol 62, 438444. [View Article] [PubMed]
    [Google Scholar]
  38. Peix A., Ramírez-Bahena M. H., Velázquez E. ( 2009 ). Historical evolution and current status of the taxonomy of genus Pseudomonas . . Infect Genet Evol 9, 11321147. [View Article] [PubMed]
    [Google Scholar]
  39. Portrait V., Gendron-Gaillard S., Cottenceau G., Pons A. M. ( 1999 ). Inhibition of pathogenic Salmonella enteritidis growth mediated by Escherichia coli microcin J25 producing strains. . Can J Microbiol 45, 988994. [View Article] [PubMed]
    [Google Scholar]
  40. Ramírez-Bahena M. H., Cuesta M. J., Flores-Félix J. D., Mulas R., Rivas R., Castro-Pinto J., Brañas J., Mulas D., González-Andrés F. & other authors ( 2014 ). Pseudomonas helmanticensis sp. nov., isolated from forest soil. . Int J Syst Evol Microbiol 64, 23382345. [View Article] [PubMed]
    [Google Scholar]
  41. Ramos E., Ramírez-Bahena M. H., Valverde A., Velázquez E., Zúñiga D., Velezmoro C., Peix A. ( 2013 ). Pseudomonas punonensis sp. nov., isolated from straw. . Int J Syst Evol Microbiol 63, 18341839. [View Article] [PubMed]
    [Google Scholar]
  42. Reddy G. S. N., Matsumoto G. I., Schumann P., Stackebrandt E., Shivaji S. ( 2004 ). Psychrophilic pseudomonads from Antarctica: Pseudomonas antarctica sp. nov., Pseudomonas meridiana sp. nov. and Pseudomonas proteolytica sp. nov.. Int J Syst Evol Microbiol 54, 713719. [View Article] [PubMed]
    [Google Scholar]
  43. Sambrook I., Fritsch E. F., Maniatis T. ( 1989 ). Molecular Cloning: a Laboratory Manual, , 2nd edn.. Cold Spring Harbor, NY:: Cold Spring Harbor Laboratory;.
    [Google Scholar]
  44. Sánchez L. A., Gómez F. F., Delgado O. D. ( 2009 ). Cold-adapted microorganisms as a source of new antimicrobials. . Extremophiles 13, 111120. [View Article] [PubMed]
    [Google Scholar]
  45. Sasser M. ( 1990 ). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101.. Newark, DE:: MIDI Inc;.
    [Google Scholar]
  46. Shivaji S., Rao N. S., Saisree L., Reddy G. S. N., Seshu Kumar G., Bhargava P. M. ( 1989 ). Isolates of Arthrobacter from the soils of Schirmacher Oasis, Antarctica. . Polar Biol 10, 225229. [View Article]
    [Google Scholar]
  47. Skerman V. B. D., McGowan V., Sneath P. H. A. ( 1980 ). Approved lists of bacterial names. . Int J Syst Bacteriol 30, 225420. [View Article]
    [Google Scholar]
  48. Smibert R. M., Krieg N. R. ( 1994 ). Phenotypic characterization. . In Methods for General and Molecular Bacteriology, pp. 607654. Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. . Washington, DC:: American Society for Microbiology;.
    [Google Scholar]
  49. Sneath P. H. A., Stevens M., Sackin M. J. ( 1981 ). Numerical taxonomy of Pseudomonas based on published records of substrate utilization. . Antonie van Leeuwenhoek 47, 423448. [View Article] [PubMed]
    [Google Scholar]
  50. Stackebrandt E., Ebers J. ( 2006 ). Taxonomic parameters revisited: tarnished gold standards. . Microbiol Today 33, 152155.
    [Google Scholar]
  51. Stackebrandt E., Frederiksen W., Garrity G. M., Grimont P. A. D., Kämpfer P., Maiden M. C. J., Nesme X., Rosselló-Mora R., Swings J. & other authors ( 2002 ). Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. . Int J Syst Evol Microbiol 52, 10431047. [View Article] [PubMed]
    [Google Scholar]
  52. Stanier R. Y., Palleroni N. J., Doudoroff M. ( 1966 ). The aerobic pseudomonads: a taxonomic study. . J Gen Microbiol 43, 159271. [View Article] [PubMed]
    [Google Scholar]
  53. 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, 27312739. [View Article] [PubMed]
    [Google Scholar]
  54. Thompson J. D., Higgins D. G., Gibson T. J. ( 1994 ). clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. . Nucleic Acids Res 22, 46734680. [View Article] [PubMed]
    [Google Scholar]
  55. Tindall B. J. ( 1990a ). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. . Syst Appl Microbiol 13, 128130. [View Article]
    [Google Scholar]
  56. Tindall B. J. ( 1990b ). Lipid composition of Halobacterium lacusprofundi . . FEMS Microbiol Lett 66, 199202. [View Article]
    [Google Scholar]
  57. Toro M., Ramírez-Bahena M. H., Cuesta M. J., Velázquez E., Peix A. ( 2013 ). Pseudomonas guariconensis sp. nov., isolated from rhizospheric soil. . Int J Syst Evol Microbiol 63, 44134420. [View Article] [PubMed]
    [Google Scholar]
  58. Vancanneyt M., Witt S., Abraham W.-R., Kersters K., Fredrickson H. L. ( 1996 ). Fatty acid content in whole-cell hydrolysates and phospholipid fractions of pseudomonads: a taxonomic evaluation. . Syst Appl Microbiol 19, 528540. [View Article]
    [Google Scholar]
  59. Verhille S., Baïda N., Dabboussi F., Hamze M., Izard D., Leclerc H. ( 1999 ). Pseudomonas gessardii sp. nov. and Pseudomonas migulae sp. nov., two new species isolated from natural mineral waters. . Int J Syst Bacteriol 49, 15591572. [View Article] [PubMed]
    [Google Scholar]
  60. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E. & other authors ( 1987 ). Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. . Int J Syst Bacteriol 37, 463464. [View Article]
    [Google Scholar]
  61. Yamamoto S., Harayama S. ( 1995 ). PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of Pseudomonas putida strains. . Appl Environ Microbiol 61, 11041109.[PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.065201-0
Loading
/content/journal/ijsem/10.1099/ijs.0.065201-0
Loading

Data & Media loading...

Supplements

Supplementary Data

PDF
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