Evidence from internally transcribed spacer sequence analysis of soybean strains that extant Bradyrhizobium spp. are likely the Products of Reticulate Evolutionary Events

Applied and Environmental Microbiology

Volumn 75, Issue 1, 2009, Pages 78-82

  Van Berkum, Peter ^a   Fuhrmann, Jeffry J ^b  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b UNIVERSITY OF DELAWARE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRADYRHIZOBIUM; BRADYRHIZOBIUM JAPONICUM; EVOLUTIONARY EVENTS; GENETIC EXCHANGES; HOMOLOGOUS RECOMBINATIONS; PHYLOGENETIC NETWORKS; SEQUENCE ALIGNMENTS; SEQUENCE ANALYSIS; SEQUENCE DATUMS; SEQUENCE IDENTITIES; SEROGROUPS; SEROTYPE; SPECIES BOUNDARIES; TRANSCRIBED SPACERS;

IMMUNOLOGY; INTELLIGENT VEHICLE HIGHWAY SYSTEMS; NUCLEIC ACIDS; NUCLEOTIDES; TRANSCRIPTION;

STRAIN;

DIVERGENCE; EVOLUTION; GENETIC ANALYSIS; RECOMBINATION; RHIZOBACTERIUM; SOYBEAN;

BRADYRHIZOBIUM; DNA, BACTERIAL; DNA, RIBOSOMAL SPACER; EVOLUTION, MOLECULAR; GENOTYPE; PHYLOGENY; POLYMORPHISM, GENETIC; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; SEROTYPING; SOYBEANS;

BRADYRHIZOBIUM; BRADYRHIZOBIUM JAPONICUM; GLYCINE MAX;

EID: 58149347792     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.01408-08     Document Type: Article

References (27)

1. Abdel Basit, H., J. S. Angle, S. Salem, E. M. Gewaily, S, I. Kotob, and P. van Berkum. 1991. Phenotypic diversity among strains of Bradyrhizoblum japonicum belonging to serogroup 110. Appl. Environ. Microbiol. 57: 1570-1572.
2. Beyene, D., S. Kassa, F. Ampy, A, Asseffa, T, Gebremedhin, and P, van Berkum. 2004. Ethiopian soils harbor natural populations of rhizobia that form symbioses with common bean (Phaseolus vulgaris L.). Arch. Microbiol. 181: 129-136.
3. Brooks, W. P. 1901. Agriculture, vol. II. Manures, fertilizers and farm crops, including green manuring and crop rotation. The Home Correspondence School, Springfield, MA.
4. Bruen, T. C., H. Philippe, and D. Bryant. 2006. A simple and robust statistical test for detecting the presence of recombination. Genetics 172: 2665-2681.
5. Bryant, D., and V. Moulton. 2004. Neighbor-Net: an agglomerative method for the construction of phylogenetic networks. Mol. Biol. Evol. 21: 255-265.
6. Carroll, W. R, 1934. A study of Rhizobium species in relation to nodule formation on the roots of Florida legumes: I. Soil Sci. 37: 117-135.
7. Cotrell, H. M., D. H. Otis, and J. G. Haney. 1900. Soil inoculation for soy beans. Kans. Agric. Exp. Stn. Bull. 96: 97-116.
8. Date, R. A., and A, M. Decker, 1965. Minimal antigenic constitution of 28 strains of Rhizobium japonicum. Can. J. Microbiol. 11: 1-8.
9. Fred, E. B., I. L, Baldwin, and E. McCoy, 1932. Some factors which influence the growth and longevity of the nodule bacteria, p. 136-137. In I. L. Baldwin, E. McCoy, and E. B. Fred (ed.). Root nodule bacteria and leguminous plants, vol. 5. University of Wisconsin, Madison.
10. Fuhrmann, J., and A. G. Wollum II, 1985. Simplified enzyme-linked immu-nosorbent assay for routine identification of Rhizobium japonicum antigens. Appl. Environ. Microbiol. 49: 1010-1013.
11. Hopkins, C., G. 1904. Nitrogen bacteria and legumes. III. Agric. Exp. Stn. Bull. 94: 307-328.
12. Huson, D, H., and D, Bryant, 2006. Application of phylogenetic networks in evolutionary studies. Mol. Biol. Evol. 23: 254-267.
13. Leonard, L. T. 1923. Nodule-production kinship between the soy bean and the cowpea. Soil Sci. 15: 277-283.
14. Lohrke, S. M., J, H, Orf, E. Martinez-Romero, and M, J, Sadowsky, 1995. Host-controlled restriction nodulation by Bradyrhizobium japonicum strains in serogroup 110. Appl. Environ. Microbiol. 61: 2378-2383.
15. Kaneko, T., Y. Nakamura, S. Sato, K. Minamisawa, T. Uchiumi, S. Sasamoto, A. Watanabe, K. Idesawa, M. Iriguehi, K. Kawashima, M. Ko-hara, M. Matsumoto, S. Shimpo, H. Tsuruoka, T. Wada, M. Yamada, and S. Tabata. 2002. Complete genomic sequence of nitrogen-fixing symbiotic bacterium Bradyrhizobium japonicum USDA 110. DNA Res. 9: 189-197.
16. Kuykendall, L, D., B, Saxena, T. E. Devine, and S, E, Udell. 1992. Genetic diversity in Bradyrhizobium japonicum Jordan 1982, and a proposal for Bradyrhizobium elkanii sp. nov. Can. J. Microbiol. 38: 501-505.
17. Sears, O, H., and W. R. Carroll. 1927. Cross inoculation with cowpea and soybean nodule bacteria. Soil Sci. 24: 413-419.
18. van Berkum, P., and B. D. Eardly, 2002. The aquatic budding bacterium Blastobacter denitrificans is a nitrogen-fixing symbiont of Aeschynomene indica. Appl. Environ. Microbiol. 68: 1132-1136.
19. van Berkum, P., and J, J, Fuhrmann, 2000. Evolutionary relationships among the soybean bradyrhizobia reconstructed from 16S rRNA gene and internally transcribed spacer region sequence divergence. Int. J. Syst. Evol. Microbiol. 50: 2165-2172.
20. van Berkum, P., and J. J. Fuhrmann. 2001. Characterization of soybean bradyrhizobia for which serogoup affinities have not been identified. Can. J. Microbiol. 47: 519-525.
21. van Berkum, P., J. M. Leibold, and B. D. Eardly. 2006. Proposal for combining Bradyrhizobium spp. (Aeschynomene indica) with Blastobacter denitri-ficans and to transfer Blastobacter denitrificans (Hirsh and Muller 1985) to the genus Bradyrhizobium as Bradyrhizobium denitrificans (comb. nov.). Syst. Appl. Microbiol. 29: 207-215.
22. van Berkum, P., S. I. Kotob, H. Abdel Basit, S. Salem, E. M. Gewaily, and J. S. Angle, 1993. Genotypic diversity among strains of Bradyrhizobium japonicum belonging to serogroup 110. Appl. Environ. Microbiol. 59: 3130-3133.
23. van Berkum, P., Z. Terefework, L. Paulin, S, Suomalainin, K. Lindstrom, and B. D. Eardly. 2003. Discordant phylogenies with the rrn loci of rhizobia. J. Bacteriol. 185: 2988-2998.
24. Vincent, J. M. 1970. A manual for the practical study of root-nodule bacteria. IBP handbook no. 15. Blackwell Scientific Publications Ltd., Oxford, United Kingdom.
25. Weaver, R. W., and L. R. Frederick. 1982. Rhizobium, p. 1043-1070. In A. L. Page, R. H. Miller, and D. R. Keeney (Ed.), Methods of soil analysis. Part 2. Chemical and microbiological properties, 2nd ed. American Society of Agronomy Madison and Soil Science Society of America, Madison, WI.
26. Xu, L. M., C. Ge, Z. Cui, J. Li, and H. Fan. 1995. Bradyrhizobium liaoningense sp. nov., isolated from the root nodules of soybean. Int. J. Syst. Bacteriol. 45: 706-711.
27. Yao, Z, Y., F. L. Kan, E. T. Wang, G. H. Wei, and W. X. Chen. 2002. Characterization of rhizobia that nodulate legume species of the genus Lespedeza and description of Bradyrhizobium yuanmingense sp. nov. Int. J. Syst. Evol. Microbiol. 52: 2219-2230.