Reclassification of Agromonas oligotrophica into the genus Bradyrhizobium as Bradyrhizobium oligotrophicum comb. nov.

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART3, 2013, Pages 1013-1016

  Ramírez Bahena, Martha Helena ^a,b   Chahboune, Rajaa ^c   Peix, Alvaro ^a,b   Velázquez, Encarna ^b  

^a INSTITUTO DE RECURSOS NATURALES Y AGROBIOLOGÍA DE SALAMANCA   (Spain)

^b UNIVERSITY OF SALAMANCA   (Spain)

^c ABDELMALEK ESSAADI UNIVERSITY   (Morocco)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; RNA 16S;

AGROMONAS OLIGOTROPHICA; ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; BRADYRHIZOBIUM; BRADYRHIZOBIUM DENITRIFICANS; BRADYRHIZOBIUM OLIGOTROPHICUM; DNA DNA HYBRIDIZATION; GENE SEQUENCE; GENOTYPE; HOUSEKEEPING GENE; JAPAN; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; UNINDEXED SEQUENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; BRADYRHIZOBIUM; DNA, BACTERIAL; GENES, BACTERIAL; JAPAN; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

EID: 84874855321     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.041897-0     Document Type: Article

References (24)

1. Chahboune, R., Barrijal, S., Moreno, S. & Bedmar, E. J. (2011). Characterization of Bradyrhizobium species isolated from root nodules of Cytisus villosus grown in Morocco. Syst Appl Microbiol 34, 440-445.
2. Chun, J. & Goodfellow, M. (1995). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240-245.
3. 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.
4. Gaunt, M. W., Turner, S. L., Rigottier-Gois, L., Lloyd-Macgilp, S. A. & Young, J. P. W. (2001). Phylogenies of atpD and recA support the small subunit rRNA-based classification of rhizobia. Int J Syst Evol Microbiol 51, 2037-2048.
5. Kennedy, C. (2005). Genus III. Agromonas Ohta and Hattori 1985, 223VP (Effective publication: Ohta and Hattori 1983, 43). In Bergey's Manual of Systematic Bacteriology, 2nd edn, vol. 2C, pp. 448-452. Edited by D. J. Brenner, N. R. Krieg, J. T. Staley & G. M. Garrity. New York: Springer.
6. 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, 716-721.
7. 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.
8. Mandel, M. & Marmur, J. (1968). Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12B, 195-206.
9. Molouba, F., Lorquin, J., Willems, A., Hoste, B., Giraud, E., Dreyfus, B., Gillis, M., de Lajudie, P. & Masson-Boivin, C. (1999). Photosynthetic bradyrhizobia from Aeschynomene spp. are specific to stem-nodulated species and form a separate 16S ribosomal DNA restriction fragment length polymorphism group. Appl Environ Microbiol 65, 3084-3094.
10. Ohta, H. & Hattori, T. (1983). Agromonas oligotrophica gen. nov., sp. nov., a nitrogen-fixing oligotrophic bacterium. Antonie van Leeuwenhoek 49, 429-446.
11. Ohta, H. & Hattori, T. (1985). Agromonas oligotrophica gen. nov., sp. nov. In Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List no. 17. Int J Syst Bacteriol 35, 223-225.
12. Ramírez-Bahena, M. H., Peix, A., Rivas, R., Camacho, M., Rodríguez-Navarro, D. N., Mateos, P. F., Martínez-Molina, E., Willems, A. & Velázquez, E. (2009). Bradyrhizobium pachyrhizi sp. nov. and Bradyrhizobium jicamae sp. nov., isolated from effective nodules of Pachyrhizus erosus. Int J Syst Evol Microbiol 59, 1929-1934.
13. Rivas, R., García-Fraile, P., Mateos, P. F., Martínez-Molina, E. & Velázquez, E. (2007). Characterization of xylanolytic bacteria present in the bract phyllosphere of the date palm Phoenix dactylifera. Lett Appl Microbiol 44, 181-187.
14. Rivas, R., Martens, M., de Lajudie, P. & Willems, A. (2009). Multilocus sequence analysis of the genus Bradyrhizobium. Syst Appl Microbiol 32, 101-110.
15. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
16. 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, 2731-2739.
17. 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.
18. van Berkum, P., Leibold, J. M. & Eardly, B. D. (2006). Proposal for combining Bradyrhizobium spp. (Aeschynomene indica) with Blastobacter denitrificans and to transfer Blastobacter denitrificans (Hirsch and Muller, 1985) to the genus Bradyrhizobium as Bradyrhizobium denitrificans (comb. nov.). Syst Appl Microbiol 29, 207-215.
19. van Berkum, P., Leibold, J. M. & Eardly, B. D. (2011). Bradyrhizobium denitrificans comb. nov. In List of New Names and New Combinations Previously Effectively, but not Validly, Published, Validation List no. 139. Int J Syst Evol Microbiol 61, 1011-1013.
20. Vinuesa, P., León-Barrios, M., Silva, C., Willems, A., Jarabo-Lorenzo, A., Pérez-Galdona, R., Werner, D. & Martínez-Romero, E. (2005a). Bradyrhizobium canariense sp. nov., an acid-tolerant endosymbiont that nodulates endemic genistoid legumes (Papilionoideae: Genisteae) from the Canary Islands, along with Bradyrhizobium japonicum bv. genistearum, Bradyrhizobium genospecies alpha and Bradyrhizobium genospecies beta. Int J Syst Evol Microbiol 55, 569-575.
21. Vinuesa, P., Silva, C., Werner, D. & Martínez-Romero, E. (2005b). Population genetics and phylogenetic inference in bacterial molecular systematics: the roles of migration and recombination in Bradyrhizobium species cohesion and delineation. Mol Phylogenet Evol 34, 29-54.
22. 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, 463-464.
23. Willems, A., Coopman, R. & Gillis, M. (2001a). Phylogenetic and DNA-DNA hybridization analyses of Bradyrhizobium species. Int J Syst Evol Microbiol 51, 111-117.
24. Willems, A., Doignon-Bourcier, F., Goris, J., Coopman, R., de Lajudie, P., De Vos, P. & Gillis, M. (2001b). DNA-DNA hybridization study of Bradyrhizobium strains. Int J Syst Evol Microbiol 51, 1315-1322.