Description of Lysinibacillus sinduriensis sp. nov., and transfer of Bacillus massiliensis and Bacillus odysseyi to the genus Lysinibacillus as Lysinibacillus massiliensis comb. nov. and Lysinibacillus odysseyi comb. nov. with emended description of the genus Lysinibacillus

International Journal of Systematic and Evolutionary Microbiology

Volumn 62, Issue 10, 2012, Pages 2347-2355

  Jung, Min Young ^a   Kim, Joong Su ^a   Paek, Woon Kee ^b   Styrak, Igor ^c,d   Park, In Soon ^a   Sin, Yeseul ^a   Paek, Jayoung ^a   Park, Keun Ae ^a   Kim, Hongik ^e   Kim, Hong Lim ^f   Chang, Young Hyo ^a  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^b ICT and Future Planning   (South Korea)

^c INSTITUTE OF ANIMAL PHYSIOLOGY   (Slovakia)

^d Institute of Geotechnics   (Slovakia)

^e Vitabio Inc   (South Korea)

^f National Institute of Animal Science   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ACID PHOSPHATASE; ARGININE DEIMINASE; BACTERIAL DNA; BACTERIAL RNA; CARDIOLIPIN; CHYMOTRYPSIN A; CYTIDINE; FATTY ACID; GLUCOSE; GUANOSINE; MENAQUINONE; OXIDOREDUCTASE; PEPTIDOGLYCAN; PHOSPHATIDYLETHANOLAMINE; PHOSPHATIDYLGLYCEROL; RIBOSOME RNA; RNA 16S; TRYPSIN; XYLOSE;

ARTICLE; BACILLUS; BACTERIAL CELL WALL; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIUM ISOLATION; CHEMOTAXONOMY; DNA DNA HYBRIDIZATION; FATTIGY ACIDFAT; HYDROLYSIS; LYSINIBACILLUS MASSILIENSIS; LYSINIBACILLUS ODYSSEYI; LYSINIBACILLUS SINDURIENSIS; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; OXIDATION; PHENOTYPE; PHYLOGENETIC TREE; PRIORITY JOURNAL; RNA SEQUENCE; SEA; SEDIMENT; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE;

BACILLACEAE; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; FATTY ACIDS; GEOLOGIC SEDIMENTS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PEPTIDOGLYCAN; PHOSPHOLIPIDS; PHYLOGENY; REPUBLIC OF KOREA; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

BACILLUS (BACTERIUM); BACILLUS MASSILIENSIS; BACILLUS ODYSSEYI; BACTERIA (MICROORGANISMS); CARYOPHANON; POSIBACTERIA; SPOROSARCINA;

EID: 84867163104     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.033837-0     Document Type: Article

References (41)

1. Ahmed, I., Yokota, A., Yamazoe, A. & Fujiwara, T. (2007). Proposal of Lysinibacillus boronitolerans gen. nov. sp. nov., and transfer of Bacillus fusiformis to Lysinibacillus fusiformis comb. nov. and Bacillus sphaericus to Lysinibacillus sphaericus comb. nov. Int J Syst Evol Microbiol 57, 1117-1125.
2. Albert, R. A., Archambault, J., Lempa, M., Hurst, B., Richardson, C., Gruenloh, S., Duran, M., Worliczek, H. L., Huber, B. E. & other authors (2007). Proposal of Viridibacillus gen. nov. and reclassification of Bacillus arvi, Bacillus arenosi and Bacillus neidei as Viridibacillus arvi gen. nov., comb. nov., Viridibacillus arenosi comb. nov. and Viridibacillus neidei comb. nov. Int J Syst Evol Microbiol 57, 2729-2737.
3. Ash, C., Farrow, J. A. E., Wallbanks, S. & Collins, M. D. (1991). Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small-subunit-ribosomal RNA sequences. Lett Appl Microbiol 13, 202-206.
4. Chang, Y. H., Han, J. I., Chun, J. S., Lee, K. C., Rhee, M. S., Kim, Y. B. & Bae, K. S. (2002). Comamonas koreensis sp. nov., a non-motile species from wetland in Woopo, Korea. Int J Syst Evol Microbiol 52, 377-381.
5. Chang, Y. H., Jung, M. Y., Park, I. S. & Oh, H. M. (2008). Sporolactobacillus vineae sp. nov., a spore-forming lactic acid bacterium isolated from vineyard soil. Int J Syst Evol Microbiol 58, 2316-2320.
6. Claus, D., Fritze, D. & Kocur, M. (1992). Genera related to the genus Bacillus-Sporolactobacillus, Sporosarcina, Planococcus, Filibacter and Caryophanon. In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, 2nd edn, vol. 2, pp. 1769-1791. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
7. Coorevits, A., Dinsdale, A. E., Heyrman, J., Schumann, P., Van Landschoot, A., Logan, N. A. & De Vos, P. (2012). Lysinibacillus macroides sp. nov., nom. rev. Int J Syst Evol Microbiol 62, 1121-1127.
8. DSMZ (2001). Catalogue of Strains, 7th edn, p. 617. Braunschweig: DSMZ. http://www.dsmz.de/fileadmin/Bereiche/Microbiology/Dateien/ Key_to_Murein2.pdf.
9. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. (1989). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39, 224-229.
10. Farrow, J. A. E., Wallbanks, S. & Collins, M. D. (1994). Phylogenetic interrelationships of round-spore-forming bacilli containing cell walls based on lysine and the non-spore-forming genera Caryophanon, Exiguobacterium, Kurthia, and Planococcus. Int J Syst Bacteriol 44, 74-82.
11. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
12. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
13. Felsenstein, J. (1993). PHYLIP (phylogeny inference package), version 3.5c, Seattle: Department of Genetics, University of Washington.
14. Fitch, W. M. (1971). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406-416.
15. Glazunova, O. O., Raoult, D. & Roux, V. (2006). Bacillus massiliensis sp. nov., isolated from cerebrospinal fluid. Int J Syst Evol Microbiol 56, 1485-1488.
16. Gonzalez, J. M. & Saiz-Jimenez, C. (2002). A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4, 770-773.
17. Heyrman, J., Rodri{dotless}́guez-Di{dotless}́az, M., Devos, J., Felske, A., Logan, N. A. & De Vos, P. (2005). Bacillus arenosi sp. nov., Bacillus arvi sp. nov. and Bacillus humi sp. nov., isolated from soil. Int J Syst Evol Microbiol 55, 111-117.
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, 3171-3173.
19. Jukes, T. H. & Cantor, C. R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21-132. Edited by H. N. Munro. New York: Academic Press.
20. Kämpfer, P., Blasczyk, K. & Auling, G. (1994). Characterization of Aeromonas genomic species by using quinone, polyamine, and fatty acid patterns. Can J Microbiol 40, 844-850.
21. Kämpfer, P., Rosselló-Mora, R., Falsen, E., Busse, H. J. & Tindall, B. J. (2006). Cohnella thermotolerans gen. nov., sp. nov., and classification of 'Paenibacillus hongkongensis' as Cohnella hongkongensis sp. nov. Int J Syst Evol Microbiol 56, 781-786.
22. Keddie, R. M. & Jones, D. (1992). The genus Kurthia. In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, 2nd edn, vol. 2, pp. 1654-1662. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
23. Komagata, K. & Suzuki, K. (1987). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161-207.
24. Krishnamurthi, S., Chakrabarti, T. & Stackebrandt, E. (2009). Re-examination of the taxonomic position of Bacillus silvestris Rheims et al. 1999 and proposal to transfer it to Solibacillus gen. nov. as Solibacillus silvestris comb. nov. Int J Syst Evol Microbiol 59, 1054-1058.
25. Krishnamurthi, S., Ruckmani, A., Pukall, R. & Chakrabarti, T. (2010). Psychrobacillus gen. nov. and proposal for reclassification of Bacillus insolitus Larkin & Stokes, 1967, B. psychrotolerans Abd-El Rahman et al., 2002 and B. psychrodurans Abd-El Rahman et al., 2002 as Psychrobacillus insolitus comb. nov., Psychrobacillus psychrotolerans comb. nov. and Psychrobacillus psychrodurans comb. nov. Syst Appl Microbiol 33, 367-373.
26. La Duc, M. T., Satomi, M. & Venkateswaran, K. (2004). Bacillus odysseyi sp. nov., a round-spore-forming bacillus isolated from the Mars Odyssey spacecraft. Int J Syst Evol Microbiol 54, 195-201.
27. Lee, C. S., Jung, Y.-T., Park, S., Oh, T.-K. & Yoon, J.-H. (2010). Lysinibacillus xylanilyticus sp. nov., a xylan-degrading bacterium isolated from forest humus. Int J Syst Evol Microbiol 60, 281-286.
28. MacKenzie, S. L. (1987). Gas chromatographic analysis of amino acids as the N-heptafluorobutyryl isobutyl esters. J Assoc Off Anal Chem 70, 151-160.
29. Miwa, H., Ahmed, I., Yokota, A. & Fujiwara, T. (2009). Lysinibacillus parviboronicapiens sp. nov., a low-boron-containing bacterium isolated from soil. Int J Syst Evol Microbiol 59, 1427-1432.
30. Nakamura, L. K., Shida, O., Takagi, H. & Komagata, K. (2002). Bacillus pycnus sp. nov. and Bacillus neidei sp. nov., round-spored bacteria from soil. Int J Syst Evol Microbiol 52, 501-505.
31. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
32. Schleifer, K. H. (1985). Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18, 123-156.
33. Schleifer, K. H. & Kandler, O. (1972). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407-477.
34. Shaw, S. & Keddie, R. M. (1983). A numerical taxonomic study of the genus Kurthia with a revised description of Kurthia zopfii and a description of Kurthia gibsonii sp. nov. Syst Appl Microbiol 4, 253-276.
35. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
36. Tindall, B. J. (1990). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13, 128-130.
37. Tindall, B. J., Rosselló-Móra, R., Busse, H.-J., Ludwig, W. & Kämpfer, P. (2010). Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60, 249-266.
38. Vaishampayan, P., Miyashita, M., Ohnishi, A., Satomi, M., Rooney, A., La Duc, M. T. & Venkateswaran, K. (2009). Description of Rummeliibacillus stabekisii gen. nov., sp. nov. and reclassification of Bacillus pycnus Nakamura et al. 2002 as Rummeliibacillus pycnus comb. nov. Int J Syst Evol Microbiol 59, 1094-1099.
39. 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). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463-464.
40. Woese, C. R., Magrum, L. J., Gupta, R., Siegel, R. B., Stahl, D. A., Kop, J., Crawford, N., Brosius, J., Gutell, R. & other authors (1980). Secondary structure model for bacterial 16S ribosomal RNA: phylogenetic, enzymatic and chemical evidence. Nucleic Acids Res 8, 2275-2293.
41. Yoon, J. H., Lee, K. C., Weiss, N., Kho, Y. H., Kang, K. H. & Park, Y. H. (2001). Sporosarcina aquimarina sp. nov., a bacterium isolated from seawater in Korea, and transfer of Bacillus globisporus (Larkin and Stokes 1967), Bacillus psychrophilus (Nakamura 1984) and Bacillus pasteurii (Chester 1898) to the genus Sporosarcina as Sporosarcina globispora comb. nov., Sporosarcina psychrophila comb. nov. and Sporosarcina pasteurii comb. nov., and emended description of the genus Sporosarcina. Int J Syst Evol Microbiol 51, 1079-1086.