Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp

International Journal of Systematic and Evolutionary Microbiology

Volumn 63, Issue PART2, 2013, Pages 435-441

  Sheu, Shih Yi ^a   Chou, Jui Hsing ^a   Bontemps, Cyril ^b,c   Elliott, Geoffrey N ^d   Gross, Eduardo ^e   dos Reis Junior, Fabio Bueno ^f   Melkonian, Rémy ^g   Moulin, Lionel ^g   James, Euan K ^d   Sprent, Janet I ^h   Young, J Peter W ⁱ   Chen, Wen Ming ^a  

^a NATIONAL KAOHSIUNG UNIVERSITY OF APPLIED SCIENCES   (Taiwan)

^b UNIVERSITÉ DE LORRAINE   (France)

^c UNIVERSITÉ DE LORRAINE   (France)

^d SCOTTISH CROP RESEARCH INSTITUTE   (United Kingdom)

^e DEPARTAMENTO DE CIÊNCIAS BIOLÓGICAS   (Brazil)

^f EMBRAPA CERRADOS   (Brazil)

^g LABORATOIRE DES SYMBIOSES TROPICALES ET MÉDITERRANÉENNES   (France)

^h UNIVERSITY OF DUNDEE   (United Kingdom)

ⁱ UNIVERSITY OF YORK   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

AMINOPHOSPHOLIPID; CARDIOLIPIN; FATTY ACID; ISOPRENOID; PHOSPHATIDYLETHANOLAMINE; PHOSPHATIDYLGLYCEROL; QUINONE DERIVATIVE; RECA PROTEIN; RNA 16S; SODIUM CHLORIDE;

ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM ISOLATION; BURKHOLDERIA; BURKHOLDERIA ACIDIPALUDIS; BURKHOLDERIA DIAZOTROPHICA; BURKHOLDERIA HOSPITA; BURKHOLDERIA PHYMATUM; BURKHOLDERIA TERRAE; DNA BASE COMPOSITION; GENE SEQUENCE; GENETIC ANALYSIS; MIMOSA; NITROGEN FIXATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHENOTYPE; PLANT ROOT; PRIORITY JOURNAL; TAXONOMY;

EID: 84864617148     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.039859-0     Document Type: Article

References (46)

1. Achouak, W., Christen, R., Barakat, M., Martel, M.-H. & Heulin, T. (1999). Burkholderia caribensis sp. nov., an exopolysaccharideproducing bacterium isolated from vertisol microaggregates in Martinique. Int J Syst Bacteriol 49, 787-794.
2. Aizawa, T., Bao Ve, N., Vijarnsorn, P., Nakajima, M. & Sunairi, M. (2010). Burkholderia acidipaludis sp. nov., aluminum-tolerant bacteria isolated from Chinese water chestnut (Eleocharis dulcis) growing in highly acidic swamps in South-East Asia. Int J Syst Evol Microbiol 60, 2036-2041.
3. Barrett, C. F. & Parker, M. A. (2005). Prevalence of Burkholderia sp. nodule symbionts on four mimosoid legumes from Barro Colorado Island, Panama. Syst Appl Microbiol 28, 57-65.
4. Barrett, C. F. & Parker, M. A. (2006). Coexistence of Burkholderia, Cupriavidus, and Rhizobium sp. nodule bacteria on two Mimosa spp. in Costa Rica. Appl Environ Microbiol 72, 1198-1206.
5. Bontemps, C., Elliott, G. N., Simon, M. F., Dos Reis Júnior, F. B., Gross, E., Lawton, R. C., Neto, N. E., de Fátima Loureiro, M., De Faria, S. M. & other authors (2010). Burkholderia species are ancient symbionts of legumes. Mol Ecol 19, 44-52.
6. Breznak, J. A. & Costilow, R. N. (1994). Physicochemical factors in growth. In Methods for General and Molecular Bacteriology, pp. 137-154. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, D.C.: American Society for Microbiology.
7. Chen, W. M., Laevens, S., Lee, T. M., Coenye, T., De Vos, P., Mergeay, M. & Vandamme, P. (2001). Ralstonia taiwanensis sp. nov., isolated from root nodules of Mimosa species and sputum of a cystic fibrosis patient. Int J Syst Evol Microbiol 51, 1729-1735.
8. Chen, W. M., James, E. K., Prescott, A. R., Kierans, M. & Sprent, J. I. (2003a). Nodulation of Mimosa spp. by the b-proteobacterium Ralstonia taiwanensis. Mol Plant Microbe Interact 16, 1051-1061.
9. Chen, W. M., Moulin, L., Bontemps, C., Vandamme, P., Béna, G. & Boivin-Masson, C. (2003b). Legume symbiotic nitrogen fixation by b-proteobacteria is widespread in nature. J Bacteriol 185, 7266-7272.
10. Chen, W. M., de Faria, S. M., Straliotto, R., Pitard, R. M., Simões-Araújo, J. L., Chou, J. H., Chou, Y. J., Barrios, E., Prescott, A. R. & other authors (2005a). Proof that Burkholderia strains form effective symbioses with legumes: a study of novel Mimosa-nodulating strains from South America. Appl Environ Microbiol 71, 7461-7471.
11. Chen, W. M., James, E. K., Chou, J. H., Sheu, S. Y., Yang, S. Z. & Sprent, J. I. (2005b). β-rhizobia from Mimosa pigra, a newly discovered invasive plant in Taiwan. New Phytol 168, 661-675.
12. Chen, W. M., James, E. K., Coenye, T., Chou, J. H., Barrios, E., de Faria, S. M., Elliott, G. N., Sheu, S. Y., Sprent, J. I. & Vandamme, P. (2006). Burkholderia mimosarum sp. nov., isolated from root nodules of Mimosa spp. from Taiwan and South America. Int J Syst Evol Microbiol 56, 1847-1851.
13. Chen, W. M., de Faria, S. M., James, E. K., Elliott, G. N., Lin, K. Y., Chou, J. H., Sheu, S. Y., Cnockaert, M., Sprent, J. I. & Vandamme, P. (2007). Burkholderia nodosa sp. nov., isolated from root nodules of the woody Brazilian legumes Mimosa bimucronata and Mimosa scabrella. Int J Syst Evol Microbiol 57, 1055-1059.
14. Chen, W. M., de Faria, S. M., Chou, J. H., James, E. K., Elliott, G. N., Sprent, J. I., Bontemps, C., Young, J. P. W. & Vandamme, P. (2008). Burkholderia sabiae sp. nov., isolated from root nodules of Mimosa caesalpiniifolia. Int J Syst Evol Microbiol 58, 2174-2179.
15. Collins, M. D. (1985). Isoprenoid quinine analysis in classification and identification. In Chemical Methods in Bacterial Systematics, pp. 267-287. Edited by M. Goodfellow & D. E. Minnikin. London: Academic Press.
16. Embley, T. M. & Wait, R. (1994). Structural lipids of eubacteria. In Chemical Methods in Prokaryotic Systematics, pp. 121-161. Edited by M. Goodfellow & A. G. O'Donnell. England: John Wiley & Sons Ltd.
17. 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.
18. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
19. Felsenstein, J. (1993). PHYLIP (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
20. Gibson, A. H. (1963). Physical environment and symbiotic nitrogen fixation. I. The effect of root temperature on recently nodulated Trifolium subterraneum L. plants. Aust J Biol Sci 16, 28-42.
21. 2-fixing isolates from rice in Vietnam. Int J Syst Bacteriol 45, 274-289.
22. Goris, J., Dejonghe, W., Falsen, E., De Clerck, E., Geeraerts, B., Willems, A., Top, E. M., Vandamme, P. & De Vos, P. (2002). Diversity of transconjugants that acquired plasmid pJP4 or pEMT1 after inoculation of a donor strain in the A-and B-horizon of an agricultural soil and description of Burkholderia hospita sp. nov. and Burkholderia terricola sp. nov. Syst Appl Microbiol 25, 340-352.
23. 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.
24. James, E. K. & Crawford, R. M. M. (1998). Effect of oxygen availability on nitrogen fixation by two Lotus species under flooded conditions. J Exp Bot 49, 599-610.
25. 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.
26. Kimura, M. (1983). The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
27. Kluge, A. G. & Farris, F. S. (1969). Quantitative phyletics and the evolution of anurans. Syst Zool 18, 1-32.
28. Maidak, B. L., Cole, J. R., Lilburn, T. G., Parker, C. T., Jr, Saxman, P. R., Farris, R. J., Garrity, G. M., Olsen, G. J., Schmidt, T. M. & Tiedje, J. M. (2001). The RDP-II (Ribosomal Database Project). Nucleic Acids Res 29, 173-174.
29. Mesbah, M., Premachandran, U. & Whitman, W. B. (1989). Precise measurement of the G+C content of deoxyribonucleic acid by highperformance liquid chromatography. Int J Syst Bacteriol 39, 159-167.
30. Miller, P. H., Wiggs, L. S. & Miller, J. M. (1995). Evaluation of AnaeroGen system for growth of anaerobic bacteria. J Clin Microbiol 33, 2388-2391.
31. Mishra, R. P., Tisseyre, P., Melkonian, R., Chaintreuil, C., Miché, L., Klonowska, A., Gonzalez, S., Bena, G., Laguerre, G. & Moulin, L. (2012). Genetic diversity of Mimosa pudica rhizobial symbionts in soils of French Guiana: investigating the origin and diversity of Burkholderia phymatum and other beta-rhizobia. FEMS Microbiol Ecol 79, 487-503.
32. 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 P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, D.C.: American Society for Microbiology.
33. Powers, E. M. (1995). Efficacy of the Ryu nonstaining KOH technique for rapidly determining Gram reactions of food-borne and waterborne bacteria and yeasts. Appl Environ Microbiol 61, 3756-3758.
34. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
35. Sasser, M. (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.
36. 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, D. C.: American Society for Microbiology.
37. Suárez-Moreno, Z. R., Caballero-Mellado, J., Coutinho, B. G., Mendonça-Previato, L., James, E. K. & Venturi, V. (2012). Common features of environmental and potentially beneficial plant-associated Burkholderia. Microb Ecol 63, 249-266.
38. 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.
39. 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.
40. Vandamme, P., Goris, J., Chen, W. M., de Vos, P. & Willems, A. (2002). Burkholderia tuberum sp. nov. and Burkholderia phymatum sp. nov., nodulate the roots of tropical legumes. Syst Appl Microbiol 25, 507-512.
41. Vandamme, P. A. R., Govan, J. R. W. & LiPuma, J. J. (2007). Diversity and role of Burkholderia spp. In Burkholderia Molecular Microbiology and Genomics, vol. 1, pp. 1-28. Edited by T. Coenye & P. Vandamme. Wymondham, UK: Horizon Bioscience.
42. Vincent, J. M. (1970). A Manual for the Practical Study of the Root-Nodule Bacteria. Oxford: Blackwell Scientific.
43. 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.
44. Yabuuchi, E., Kosako, Y., Oyaizu, H., Yano, I., Hotta, H., Hashimoto, Y., Ezaki, T. & Arakawa, M. (1992). Proposal of Burkholderia gen. nov. and transfer of seven species of the genus Pseudomonas homology group II to the new genus, with the type species Burkholderia cepacia (Palleroni and Holmes 1981) comb. nov. Microbiol Immunol 36, 1251-1275.
45. Yang, H.-C., Im, W.-T., Kim, K. K., An, D.-S. & Lee, S.-T. (2006). Burkholderia terrae sp. nov., isolated from a forest soil. Int J Syst Evol Microbiol 56, 453-457.
46. Zhang, H., Hanada, S., Shigematsu, T., Shibuya, K., Kamagata, Y., Kanagawa, T. & Kurane, R. (2000). Burkholderia kururiensis sp. nov., a trichloroethylene (TCE)-degrading bacterium isolated from an aquifer polluted with TCE. Int J Syst Evol Microbiol 50, 743-749.