Conflicting phylogeographic patterns in rRNA and nifD indicate regionally restricted gene transfer in Bradyrhizobium

Microbiology

Volumn 148, Issue 8, 2002, Pages 2557-2565

  Parker, Matthew A ^a   Lafay, Benedicte ^a   Burdon, Jeremy J ^a   van Berkum, Peter ^a  

^a BINGHAMTON UNIVERSITY   (United States)

Author keywords

Geographic variation; Nitrogenase; Nodule bacteria; Rhizobiaceae

Indexed keywords

NITROGENASE; RIBOSOME RNA; RNA 16S;

ALPHA CHAIN; ARTICLE; ASIA; AUSTRALIA; BACTERIAL STRAIN; BACTERIUM ISOLATE; BRADYRHIZOBIUM; BRADYRHIZOBIUM JAPONICUM; CENTRAL AMERICA; CONTROLLED STUDY; DNA RESTRICTION; GENE DUPLICATION; GENE LOCATION; GENE LOCUS; GENE SEQUENCE; GEOGRAPHIC DISTRIBUTION; HORIZONTAL GENE TRANSFER; MOLECULAR PHYLOGENY; NONHUMAN; NORTH AMERICA; NUCLEOTIDE SEQUENCE; PARALOGY; PHYLOGEOGRAPHY; PRIORITY JOURNAL; SEQUENCE HOMOLOGY; SOUTHERN BLOTTING; BACTERIAL GENE; CLASSIFICATION; DNA SEQUENCE; GENETICS; GENOTYPE; METABOLISM; MOLECULAR GENETICS; PHYLOGENY;

AGROBACTERIUM; BACTERIA (MICROORGANISMS); BRADYRHIZOBIUM; BRADYRHIZOBIUM ELKANII; BRADYRHIZOBIUM JAPONICUM; NEGIBACTERIA; PROKARYOTA; RHIZOBIACEAE; RHIZOBIUM;

BRADYRHIZOBIUM; GENE TRANSFER, HORIZONTAL; GENES, BACTERIAL; GENOTYPE; MOLECULAR SEQUENCE DATA; NITROGENASE; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

EID: 0036667447     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/00221287-148-8-2557     Document Type: Article

References (51)

1. Biodiversity of bradyrhizobia nodulating Lupinus spp
2. Sequence evolution in bacterial endosymbionts having extreme base composition
3. Can three incongruence tests predict when data should be combined?
4. Homology in molecular phylogenetics: A parsimony perspective
5. A phylogeny of the chloroplast gene rbcl in the Leguminosae: Taxonomic correlations and insights into the evolution of nodulation
6. Recombination in Escherichia coli and the definition of biological species
7. Corresponding 16S rRNA gene segments in Rhizobiaceae and Aeromonas yield discordant phylogenies
8. Testing significance of incongruence
9. Confidence limits on phylogenies: An approach using the bootstrap
10. Potential symbiosis-specific genes uncovered by sequencing a 410-kilobase DNA region of the Bradyrhizobium japonicum chromosome
11. Dating the humanape split by a molecular clock of mitochondrial DNA
12. Three phylogenetic groups of nodA and nifH genes in Sinorhizobium and Mesorhizobium isolates from leguminous trees growing in Africa and Latin America
13. rRNA operon copy number reflects ecological strategies of bacteria
14. Correlated physical and genetic map of the Bradyrhizobium japonicum 110 genome
15. A single rRNA gene region in Bradyrhizobium japonicum
16. Genetic diversity in Bradyrhizobium japonicum Jordan 1982 and a proposal for Bradyrhizobium elkanii sp. nov
17. Molecular diversity of rhizobia occurring on native shrubby legumes in southeastern Australia
18. Small-subunit rRNA genotyping of rhizobia nodulating Australian Acacia spp
19. Classification of rhizobia based on nodC and nifH gene analysis reveals a close phylogenetic relationship among Phaseolus vulgaris symbionts
20. Null models for the number of evolutionary steps in a character on a phylogenetic tree
21. Relationships of bradyrhizobia from the legumes Apios americana and Desmodium glutinosum
22. Divergent Bradyrhizobium symbionts on Tachigali versicolor from Barro Colorado Island, Panama
23. Case of localized recombination in 23S rRNA genes from divergent Bradyrhizobium lineages associated with neotropical legumes
24. Relationships of bradyrhizobia from Platypodium and Machaerium (Papilionoideae tribe Dalbergieae) on Barro Colorado Island, Panama
25. Contrasting nifD and ribosomal gene relationships among Mesorhizobium from Lotus oroboides in northern Mexico
26. Distribution of repC plasmid-replication sequences among plasmids and isolates of Rhizobium leguminosarum bv. viciae from field populations
27. The neighbor-joining method: A new method for reconstructing phylogenetic trees
28. Multiple comparisons of log-likelihoods with applications to phylogenetic inference
29. A cladistic measure of gene flow inferred from the phylogenies of alleles
30. Bacterial population genetics, evolution and epidemiology
31. Evolution of rhizobia by acquisition of a 500-kb symbiosis island that integrates into a phe-tRNA gene
32. Nodulating strains of Rhizobium loti arise through chromosomal symbiotic gene transfer in the environment
33. Four unnamed species of nonsymbiotic rhizobia isolated from the rhizosphere of Lotus corniculatus
34. CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice
35. The glutamine synthetases of rhizobia: Phylogenetics and evolutionary implications
36. Phylogeny of Sym plasmids of rhizobia by PCR-based sequencing of a nodC segment
37. Evolutionary relationships among the soybean bradyrhizobia reconstructed from 16S rRNA gene and internally transcribed spacer region sequence divergence
38. Some issues of relevance in the taxonomy of rhizobia
39. Comparative sequence analyses reveal frequent occurrence of short segments containing an abnormally high number of non-random base variations in bacterial rRNA genes
40. Phylogenetic incongruence: Window into genome history and molecular evolution
41. Comparison of the evolutionary dynamics of symbiotic and housekeeping loci: A case for the genetic coherence of rhizobial lineages
42. Rhizobium gone native: Unexpected plasmid stability of indigenous Rhizobium leguminosarum
43. Evolution and phylogeny of Wolbachia: Reproductive parasites of arthropods
44. Phylogenetic and DNA-DNA hybridization analyses of Bradyrhizobium species
45. Longevity of Rhizobium japonicum in relation to its symbiont on the soil
46. Bacterial evolution
47. Bradyrhizobium liaoningense sp. nov., isolated from the root nodules of soybeans
48. Distinct types of rRNA operons exist in the genome of the actinomycete Thermomonospora chromogena and evidence for horizontal transfer of an entire rRNA operon
49. Sym plasmid and chromosomal genotypes are correlated in field populations of Rhizobium leguminosarum
50. Diversity and phylogeny of rhizobia
51. Interspecies recombination, and phylogenetic distortions, within the glutamine synthetase and shikimate dehydrogenase genes of Neisseria meningitidis and commensal Neisseria species