1887

Abstract

A Gram-stain-positive thermophilic bacterium, designated strain Nis3, was isolated from compost. The strain grew at 23–57 °C (optimum, 50 °C); no growth was observed below 15 or above 60 °C. The pH range for growth was 5.9–8.8 (optimum, 7.0); no growth was observed below pH 5.4 or above pH 9.3. The DNA G+C content of strain Nis3 was 63.4 mol%. The dominant quinone type was ubiquinone Q-10. The major fatty acids were Cω7, Cω8 cyclo and C. The polar lipids comprised phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylinositol, phosphatidylmonomethylethanolamine, an unknown glycolipid and a ninhydrin-positive phospholipid. 16S rRNA gene sequence analysis assigned this bacterium to the family in the but it shared less than 95.2 % sequence similarity with other members of the family. The chemotaxonomic and phenotypic characteristics of strain Nis3 differed in some respects from those of members of the family . Therefore, strain Nis3 is considered to represent a novel species of a new genus in the family , for which the name gen. nov., sp. nov. is proposed. The type strain is Nis3 ( = JCM 17863 = KCTC 23707).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.037812-0
2012-12-01
2024-04-25
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/62/12/2991.html?itemId=/content/journal/ijsem/10.1099/ijs.0.037812-0&mimeType=html&fmt=ahah

References

  1. Bambauer A., Rainey F. A., Stackebrandt E., Winter J. 1998; Characterization of Aquamicrobium defluvii gen. nov. sp. nov., a thiophene-2-carboxylate-metabolizing bacterium from activated sludge. Arch Microbiol 169:293–302 [View Article][PubMed]
    [Google Scholar]
  2. Biebl H., Tindall B. J., Pukall R., Lünsdorf H., Allgaier M., Wagner-Döbler I. 2006; Hoeflea phototrophica sp. nov., a novel marine aerobic alphaproteobacterium that forms bacteriochlorophyll a . Int J Syst Evol Microbiol 56:821–826 [View Article][PubMed]
    [Google Scholar]
  3. Doronina N. V., Kaparullina E. N., Trotsenko Y. A., Nörtemann B., Bucheli-Witschel M., Weilenmann H. U., Egli T. 2010; Chelativorans multitrophicus gen. nov., sp. nov. and Chelativorans oligotrophicus sp. nov., aerobic EDTA-degrading bacteria. Int J Syst Evol Microbiol 60:1044–1051 [View Article][PubMed]
    [Google Scholar]
  4. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  5. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  6. Fritsche K., Auling G., Andreesen J. R., Lechner U. 1999; Defluvibacter lusatiae gen. nov., sp. nov., a new chlorohenol-degrading member of the α-2 subgroup of Proteobacteria. Syst Appl Microbiol 22:197–204 [View Article][PubMed]
    [Google Scholar]
  7. Ghosh W., Roy P. 2006; Mesorhizobium thiogangeticum sp. nov., a novel sulfur-oxidizing chemolithoautotroph from rhizosphere soil of an Indian tropical leguminous plant. Int J Syst Evol Microbiol 56:91–97 [View Article][PubMed]
    [Google Scholar]
  8. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [View Article][PubMed]
    [Google Scholar]
  9. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
    [Google Scholar]
  10. Jarvis B. D. W., Van Berkum P., Chen W. X., Nour S. M., Fernandez M. P., Cleyet-Marel J. C., Gillis M. 1997; Transfer of Rhizobium loti, Rhizobium huakuii, Rhizobium ciceri, Rhizobium mediterraneum, and Rhizobium tianshanense to Mesorhizobium gen. nov. Int J Syst Bacteriol 47:895–898 [View Article]
    [Google Scholar]
  11. Jurado V., Laiz L., Gonzalez J. M., Hernandez-Marine M., Valens M., Saiz-Jimenez C. 2005; Phyllobacterium catacumbae sp. nov., a member of the order ‘Rhizobiales’ isolated from Roman catacombs. Int J Syst Evol Microbiol 55:1487–1490 [View Article][PubMed]
    [Google Scholar]
  12. Kämpfer P., Müller C., Mau M., Neef A., Auling G., Busse H. J., Osborn A. M., Stolz A. 1999; Description of Pseudaminobacter gen. nov. with two new species, Pseudaminobacter salicylatoxidans sp. nov. and Pseudaminobacter defluvii sp. nov. Int J Syst Bacteriol 49:887–897 [View Article][PubMed]
    [Google Scholar]
  13. Kämpfer P., Martin E., Lodders N., Jäckel U. 2009; Transfer of Defluvibacter lusatiensis to the genus Aquamicrobium as Aquamicrobium lusatiense comb. nov. and description of Aquamicrobium aerolatum sp. nov. Int J Syst Evol Microbiol 59:2468–2470 [View Article][PubMed]
    [Google Scholar]
  14. Kang H. S., Yang H. L., Lee S. D. 2009; Nitratireductor kimnyeongensis sp. nov., isolated from seaweed. Int J Syst Evol Microbiol 59:1036–1039 [View Article][PubMed]
    [Google Scholar]
  15. Kim K. H., Roh S. W., Chang H. W., Nam Y. D., Yoon J. H., Jeon C. O., Oh H. M., Bae J. W. 2009; Nitratireductor basaltis sp. nov., isolated from black beach sand. Int J Syst Evol Microbiol 59:135–138 [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. Knösel D. H. 1984; Genus IV. Phyllobacterium (ex Knösel 1962) nom. rev. (Phyllobacterium Knösel 1962, 96). In Bergey’s Manual of Systematic Bacteriology vol. 1 pp. 254–256 Edited by Krieg N. R., Holt J. G. Baltimore: Williams & Wilkins;
    [Google Scholar]
  18. Labbé N., Parent S., Villemur R. 2004; Nitratireductor aquibiodomus gen. nov., sp. nov., a novel α-proteobacterium from the marine denitrification system of the Montreal Biodome (Canada). Int J Syst Evol Microbiol 54:269–273 [View Article][PubMed]
    [Google Scholar]
  19. Lai Q., Yu Z., Wang J., Zhong H., Sun F., Wang L., Wang B., Shao Z. 2011; Nitratireductor pacificus sp. nov., isolated from a pyrene-degrading consortium. Int J Syst Evol Microbiol 61:1386–1391 [View Article][PubMed]
    [Google Scholar]
  20. Lipski A., Kämpfer P. 2012; Aquamicrobium ahrensii sp. nov and Aquamicrobium segne sp. nov. from experimental biofilters. Int J Syst Evol Microbiol 62:2511–2516 [View Article][PubMed]
    [Google Scholar]
  21. McDonald I. R., Kämpfer P., Topp E., Warner K. L., Cox M. J., Hancock T. L., Miller L. G., Larkin M. J., Ducrocq V. other authors 2005; Aminobacter ciceronei sp. nov. and Aminobacter lissarensis sp. nov., isolated from various terrestrial environments. Int J Syst Evol Microbiol 55:1827–1832 [View Article][PubMed]
    [Google Scholar]
  22. Mergaert J., Cnockaert M. C., Swings J. 2002; Phyllobacterium myrsinacearum (subjective synonym Phyllobacterium rubiacearum) emend. Int J Syst Evol Microbiol 52:1821–1823 [View Article][PubMed]
    [Google Scholar]
  23. Nishijima M., Araki-Sakai M., Sano H. 1997; Identification of isoprenoid quinones by frit-FAB liquid chromatography-mass spectrometry for the chemotaxonomy of microorganisms. J Microbiol Methods 28:113–122 [View Article]
    [Google Scholar]
  24. Palacios L., Arahal D. R., Reguera B., Marín I. 2006; Hoeflea alexandrii sp. nov., isolated from the toxic dinoflagellate Alexandrium minutum AL1V. Int J Syst Evol Microbiol 56:1991–1995 [View Article][PubMed]
    [Google Scholar]
  25. Peix A., Rivas R., Trujillo M. E., Vancanneyt M., Velázquez E., Willems A. 2005; Reclassification of Agrobacterium ferrugineum LMG 128 as Hoeflea marina gen. nov., sp. nov. Int J Syst Evol Microbiol 55:1163–1166 [View Article][PubMed]
    [Google Scholar]
  26. 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]
  27. Smibert R. M., Krieg N. L. 1994; Phenotypic characterization. In Methods for General and Molecular Bacteriology pp. 607–654 Edited by Gerhardt P., Murray R. G. E., Wood W. A., Krieg N. R. Washington, DC: American Society for Microbiology;
    [Google Scholar]
  28. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [View Article]
    [Google Scholar]
  29. 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 [View Article][PubMed]
    [Google Scholar]
  30. 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 22:4673–4680 [View Article][PubMed]
    [Google Scholar]
  31. Tighe S. W., de Lajudie P., Dipietro K., Lindström K., Nick G., Jarvis B. D. W. 2000; Analysis of cellular fatty acids and phenotypic relationships of Agrobacterium, Bradyrhizobium, Mesorhizobium, Rhizobium and Sinorhizobium species using the Sherlock Microbial Identification System. Int J Syst Evol Microbiol 50:787–801 [View Article][PubMed]
    [Google Scholar]
  32. Tindall B. J. 1990a; A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13:128–130 [View Article]
    [Google Scholar]
  33. Tindall B. J. 1990b; Lipid composition of Halobacterium lacusprofundi . FEMS Microbiol Lett 66:199–202 [View Article]
    [Google Scholar]
  34. Urakami T., Araki H., Oyanagi H., Suzuki K., Komagata K. 1992; Transfer of Pseudomonas aminovorans (den Dooren de Jong 1926) to Aminobacter gen. nov. as Aminobacter aminovorans comb. nov. and description of Aminobacter aganoensis sp. nov. and Aminobacter niigataensis sp. nov.. Int J Syst Bacteriol 42:84–92 [View Article]
    [Google Scholar]
  35. Valverde A., Velázquez E., Fernández-Santos F., Vizcaíno N., Rivas R., Mateos P. F., Martínez-Molina E., Igual J. M., Willems A. 2005; Phyllobacterium trifolii sp. nov., nodulating Trifolium and Lupinus in Spanish soils. Int J Syst Evol Microbiol 55:1985–1989 [View Article][PubMed]
    [Google Scholar]
  36. Wang F. Q., Wang E. T., Liu J., Chen Q., Sui X. H., Chen W. F., Chen W. X. 2007; Mesorhizobium albiziae sp. nov., a novel bacterium that nodulates Albizia kalkora in a subtropical region of China. Int J Syst Evol Microbiol 57:1192–1199 [View Article][PubMed]
    [Google Scholar]
  37. Yabe S., Kato A., Hazaka M., Yokota A. 2009; Thermaerobacter composti sp. nov., a novel extremely thermophilic bacterium isolated from compost. J Gen Appl Microbiol 55:323–328 [View Article][PubMed]
    [Google Scholar]
  38. Yabe S., Aiba Y., Sakai Y., Hazaka M., Yokota A. 2010; Thermosporothrix hazakensis gen. nov., sp. nov., isolated from compost, description of Thermosporotrichaceae fam. nov. within the class Ktedonobacteria Cavaletti et al. 2007 and emended description of the class Ktedonobacteria . Int J Syst Evol Microbiol 60:1794–1801 [View Article][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.037812-0
Loading
/content/journal/ijsem/10.1099/ijs.0.037812-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

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