Genetic markers for analysing symbiotic relationships and lateral gene transfer in neotropical bradyrhizobia

Molecular Ecology

Volumn 12, Issue 9, 2003, Pages 2447-2455

  Parker, M A ^a  

^a BINGHAMTON UNIVERSITY   (United States)

Author keywords

23S rRNA; Bradyrhizobium; Leguminosae; Tropical biodiversity

Indexed keywords

BASE SEQUENCE; BRADYRHIZOBIUM; CHROMOSOME MAPPING; CLUSTER ANALYSIS; DNA PRIMERS; EVOLUTION, MOLECULAR; FABACEAE; MOLECULAR SEQUENCE DATA; PANAMA; PHYLOGENY; RNA, RIBOSOMAL, 16S; RNA, RIBOSOMAL, 23S; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; SYMBIOSIS;

BACTERIA (MICROORGANISMS); BRADYRHIZOBIUM; BRADYRHIZOBIUM ELKANII; BRADYRHIZOBIUM JAPONICUM; BRADYRHIZOBIUM SP.; CENTROSEMA; DESMODIUM; DIOCLEA; FABACEAE; INGA; MACHAERIUM; PROKARYOTA; VIGNA;

EID: 0041874641     PISSN: 09621083     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-294X.2003.01908.x     Document Type: Article

References (39)

1. Allen ON, Allen EK (1981) The Leguminosae: a Source Book of Characteristics, Uses, and Nodulation. University of Wisconsin press, Madison, WI.
2. Barrera LL, Trujillo ME, Goodfellow M et al. (1997) Biodiversity of bradyrhizobia nodulating Lupinus spp. International Journal of Systematic Bacteriology, 47, 1086-1091.
3. van Berkum P, Fuhrmann JJ (2000) Evolutionary relationships among the soybean bradyrhizobia reconstructed from 16S rRNA gene and internally transcribed spacer region sequence divergence. International Journal of Systematic and Evolutionary Microbiology, 50, 2165-2172.
4. Cohan FM (2001) Bacterial species and speciation. Systematic Biology, 50, 513-524.
5. Croat TB (1978) Flora of Barro Colorado Island. Stanford University Press, Stanford, CA.
6. Denison RF (2000) Legume sanctions and the evolution of symbiotic cooperation by rhizobia. American Naturalist, 156, 567-576.
7. Devine TE, Kuykendall LD, OíNeill JJ (1988) DNA homology group and the identity of bradyrhizobial strains producing rhzobitoxine-induced foliar chlorosis on soybean. Crop Science, 28, 939-941.
8. Doyle JJ, Doyle JL (1993) Chloroplast DNA phylogeny of the papilionoid legume tribe Phaseoleae. Systematic Botany, 18, 309-327.
9. Dupuy N, Willems A, Pot B et al. (1994) Phenotypic and genotypic characterization of bradyrhizobia nodulating the leguminous tree Acacia albida. International Journal of Systematic Bacteriology, 44, 461-473.
10. Evguenieva-Hackenberg E, Klug G (2000) RNase III processing of intervening sequences found in helix 9 of 23S rRNA in the alpha subclass of Proteobacteria. Journal of Bacteriology, 182, 4719-4729.
11. de Faria SM, Franco AA, de Jesus RM et al. (1984) New nodulating legume trees from south east Brazil. New Phytologist, 98, 317-327.
12. de Faria SM, Lewis GP, Sprent JI, Sutherland JM (1989) Occurrence of nodulation in the Leguminosae. New Phytologist, 111, 607-619.
13. Farris JS, Kallersjo M, Kluge AG, Bult C (1995) Testing significance of incongruence. Cladistics, 10, 315-319.
14. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39, 783-791.
15. Foster RB, Brokaw NVL (1996) Structure and history of the vegetation on Barro Colorado Island). In: The Ecology of a Tropical Forest: Seasonal Rhythms and Long-Term Changes, 2nd edn (eds Leigh EG, Rand AS, Windsor DM), pp. 67-81. Smithsonian Institution, Washington, DC.
16. Gentry AH (1993) A Field Guide to the Families and Genera of Woody Plants of Northwestern South America. University of Chicago Press, Chicago, IL.
17. INBio (Instituto Nacional de Biodiversidad, Costa Rica) (2002) Inventario Nacional de Biodiversidad - Lista de familias de plantas. Available from http://www.inbio.ac.cr/bims/PLANTAE.html [updated May 2002].
18. Lafay B, Burdon JJ (1998) Molecular diversity of rhizobia occurring on native shrubby legumes in southeastern Australia. Applied and Environmental Microbiology, 64, 3989-3997.
19. Moreira FMS, Haukka K, Young JPW (1998) Biodiversity of rhizobia isolated from a wide range of forest legumes in Brazil. Molecular Ecology, 7, 889-895.
20. Oyaizu H, Matsumoto S, Minamisawa K, Gamou T (1993) Distribution of rhizobia in leguminous plants surveyed by phylogenetic identification. Journal of General and Applied Microbiology, 39, 339-354.
21. Parker MA (1999a) Relationships of bradyrhizobia from the legumes Apios americana and Desmodium glutinosum. Applied and Environmental Microbiology, 65, 4914-4920.
22. Parker MA (1999b) Mutualism in metapopulations of legumes and rhizobia. American Naturalist, 153, S48-S60.
23. Parker MA (2000) Divergent Bradyrhizobium symbionts on Tachigali versicolor from Barro Colorado Island, Panama. Systematic and Applied Microbiology, 23, 585-590.
24. Parker MA (2001) Case of localized recombination in 23S rRNA genes from divergent Bradyrhizobium lineages associated with Neotropical legumes. Applied and Environmental Microbiology, 67, 2076-2082.
25. Parker MA (2002) Bradyrhizobia from wild Phaseolus, Desmodium, and Macroptilium species in northern Mexico. Applied and Environmental Microbiology, 68, 2044-2048.
26. Parker MA (2003) A widespread Neotropical Bradyrhizobium lineage associated with Machaerium and Desmodium (Papilionoideae). Plant and Soil, in press.
27. Parker MA, Lafay B, Burdon JJ, van Berkum P (2002) Conflicting phylogeographic patterns in rRNA and nifD indicate regionally-restricted gene transfer in Bradyrhizobium. Microbiology, 148, 2557-2565.
28. Parker MA, Lunk A (2000) Relationships of bradyrhizobia from Platypodium and Machaerium (Papilionoideae tribe Dalbergieae) on Barro Colorado Island, Panama. International Journal of Systematic and Evolutionary Microbiology, 50, 1179-1186.
29. Qian J, Kwon SW, Parker MA (2003) rRNA and nifD phylogeny of Bradyrhizobium from sites across the Pacific Basin. FEMS Microbiology Letters, 219, 159-165.
30. Raven PH, Polhill RM (1981) Biogeography of the Leguminosae. In: Advances in Legume Systematics (eds Polhill RM, Raven PH), pp. 27-34. Royal Botanical Gardens, Kew, U.K.
31. Sawyer S (1989) Statistical tests for detecting gene conversion. Molecular Biology and Evolution, 6, 526-538.
32. Spoerke JM, Wilkinson HH, Parker MA (1996) Nonrandom genotypic associations in a legume-Bradyrhizobium mutualism. Evolution, 50, 146-154.
33. Spratt BG, Maiden MCJ (1999) Bacterial population genetics, evolution and epidemiology. Philosophical Transactions of the Royal Society London B, 354, 701-710.
34. Sterner JP, Parker MA (1999) Diversity and relationships of bradyrhizobia from. Amphicarpaea bracteata based on partial nod and ribosomal sequences. Systematic and Applied Microbiology, 22, 387-392.
35. Thies JE, Woomer PL, Singleton PW (1995) Enrichment of Bradyrhizobium spp. populations in soil due to cropping of the homologous host legume. Soil Biology and Biochemistry, 27, 633-636.
36. Thompson JD, Higgans DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research, 22, 4673-4680.
37. Wang ET, van Berkum P, Sui XH et al. (1999) Diversity of rhizobia associated with Amorpha fruticosa isolated from Chinese soils and description of Mesorhizobium amorphae sp. nov. International Journal of Systematic and Evolutionary Microbiology, 49, 51-65.
38. Willems A, Coopman R, Gillis M (2001) Phylogenetic and DNA-DNA hybridization analyses of Bradyrhizobium species. International Journal of Systematic and Evolutionary Microbiology, 51, 111-117.
39. Young JPW, Haukka KE (1996) Diversity and phylogeny of rhizobia. New Phytologist, 133, 87-94.