Phenotypic and Genotypic Characterization of Rhizobia from Diverse Geographical Origin that Nodulate Pachyrhizus species

Rodríguez-Navarro, Dulce N.; Camacho, M. E.; Leidi, Eduardo O.; Rivas, Raúl; Velázquez, Encarna

doi:10.1078/0723202042369839

Cited by 21 publications

(13 citation statements)

References 42 publications

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“…Such an event was recently reported to have occurred in Brazilian soybean fields (1). IGS type IV showed significant similarity with unclassified bradyrhizobia from Pachyrhizus erosus plants native to Central and South America, but these were not able to nodulate soybean plants (17). We also evaluated one representative of IGS type IV on soybean plants and found that the strain was fully effective for N 2 fixation (data not shown).…”

Section: Discussionmentioning

confidence: 99%

“…Since then, several studies have reported nodulation of various legumes by B. yuanmingense-related rhizobia (8,15,17,30). Studies of host specificity showed that these B. yuanmingense isolates were not capable of effective nodulation of soybean plants (8,17,31,33). Two representative B. yuanmingense soybean isolates were evaluated on soybean plants and were effective in symbiotic N 2 fixation (data not shown).…”

Section: Discussionmentioning

confidence: 99%

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Genetic Diversity of Native Bradyrhizobia Isolated from Soybeans ( Glycine max L.) in Different Agricultural-Ecological-Climatic Regions of India

Appunu

N’Zoué

Laguerre

2008

Appl Environ Microbiol

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Fifty isolates from root nodules of soybean plants sampled in five agricultural-ecological-climatic regions of India were analyzed by PCR-restriction fragment length polymorphism analysis of the 16S rRNA gene, the intergenic spacer region between the 16S and 23S rRNA genes (IGS), and the nifH and nodC genes. Eight haplotypes assigned to the Bradyrhizobium genus were identified, and the genetic diversity was conserved across regions. Sequence analyses of the IGS and the dnaK, glnII, recA, and nifH genes revealed three groups. One of them (26% of isolates) was assigned to Bradyrhizobium liaoningense. A second group (36% of isolates) was identified as B. yuanmingense but likely forms a new biovar able to nodulate soybean plants. The third lineage (38% of isolates) was different from all described Bradyrhizobium species but showed the same symbiotic genotype as B. liaoningense and B. japonicum bv. glycinearum.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Genetic Diversity of Native Bradyrhizobia Isolated from Soybeans ( Glycine max L.) in Different Agricultural-Ecological-Climatic Regions of India

Appunu

N’Zoué

Laguerre

2008

Appl Environ Microbiol

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“…Genetic characterization and evaluation of Bradyrhizobium strains has greatly improved with the availability of several molecular techniques (van Berkum & Fuhrmann, 2000;Willems et al, 2003;Rodríguez-Navarro et al, 2004;Stepkowski et al, 2005). One example is the amplification of repetitive regions dispersed in the genome of eubacteria (rep-PCR), such as the sequences known as BOX, which result in highly characteristic bacterial fingerprints (Mostasso et al, 2002;Saldaña et al, 2003;Hungria et al, 2006;Wang et al, 2006;Pinto et al, 2007;Menna et al, 2009).…”

Section: Discussionmentioning

confidence: 99%

Phylogeny and taxonomy of a diverse collection of Bradyrhizobium strains based on multilocus sequence analysis of the 16S rRNA gene, ITS region and glnII, recA, atpD and dnaK genes

Menna

Barcellos

Hungría

2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

158

114

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Phylogeny and taxonomy of a diverse collection of Bradyrhizobium strains based on multilocus sequence analysis of the 16S rRNA gene, ITS region and glnII, recA, atpD and dnaK genes were obtained with MLSA of glnII, recA, atpD and dnaK. Greatest variability was observed when the atpD gene was amplified, and five strains related to B. elkanii revealed a level of variability never reported before. Another important observation was that a group composed of strains USDA 110, SEMIA 5080 and SEMIA 6059, all isolated from soybean, clustered in all six trees with high bootstrap support and were quite distinct from the clusters that included B. japonicum USDA 6 T . The results confirm that MLSA is a rapid and reliable way of providing information on phylogenetic relationships and of identifying rhizobial strains potentially representative of novel species. INTRODUCTIONThe genus Bradyrhizobium was created to accommodate bacteria capable of establishing N 2 -fixing symbioses with several leguminous species and characterized by slow growth and an alkaline reaction in culture media containing mannitol as a carbon source (Jordan, 1982). Based on 16S rRNA gene sequences, the genus Bradyrhizobium forms a clade in the Alphaproteobacteria, along with oligotrophic soil and aquatic bacteria such as Rhodopseudomonas palustris, Rhodoplanes roseus, Nitrobacter winogradskyi and Blastobacter denitrificans and pathogens such as Afipia species, among others (Saito et al., 1998;Willems et al., 2001a;van Berkum & Eardly, 2002;Sawada et al., 2003). Symbiotic Bradyrhizobium strains have been isolated from Abbreviations: ITS, intergenic transcribed spacer; MLSA, multilocus sequence analysis.

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“…This tuberous root-producing legume may be considered as an alternative crop for the sustainable production of starch, oil and protein due to its ability to establish effective nitrogen-fixing symbiosis with rhizobia (Fuentes et al, 2002;Leidi et al, 2003). The symbiotic association between Pachyrhizus and members of the genus Bradyrhizobium has been previously reported, showing that this legume can be nodulated by strains phylogenetically divergent from the currently recognized species of genus Bradyrhizobium (Rodríguez-Navarro et al, 2004).…”

mentioning

confidence: 97%

“…Strains PAC48 T and PAC68 T , designated as the type strains of the two new species proposed in this study, were obtained in a previous study from effective nodules of P. erosus in Costa Rica and Honduras, respectively (Rodríguez-Navarro et al, 2004). In the present study, four additional strains isolated in Honduras, PAC51, PAC568, PAC683 and PAC684, were isolated from nodules of the same legume as previously described by Rodríguez-Navarro et al (2004) on yeast mannitol agar (YMA) plates that were incubated for 4 days at 28 uC (Vincent, 1970). All strains showed a slow growth rate and formed mucoid Bradyrhizobium-like colonies.…”

mentioning

confidence: 99%

Bradyrhizobium pachyrhizi sp. nov. and Bradyrhizobium jicamae sp. nov., isolated from effective nodules of Pachyrhizus erosus

Ramírez-Bahena

Peix

Rivas

et al. 2009

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLO

120

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Several strains isolated from the legume Pachyrhizus erosus were characterized on the basis of diverse genetic, phenotypic and symbiotic approaches. These novel strains formed two groups closely related to Bradyrhizobium elkanii according to their 16S rRNA gene sequences. Strains PAC48T and PAC68T, designated as the type strains of these two groups, presented 99.8 and 99.1% similarity, respectively, in their 16S rRNA gene sequences with respect to B. elkanii USDA 76T. In spite of these high similarity values, the analysis of additional phylogenetic markers such as atpD and glnII genes and the 16S-23S intergenic spacer (ITS) showed that strains PAC48T and PAC68T represented two separate novel species of the genus Bradyrhizobium with B. elkanii as their closest relative. Phenotypic differences among the novel strains isolated from Pachyrhizus and B. elkanii were found regarding the assimilation of carbon sources and antibiotic resistance. All these differences were congruent with DNA-DNA hybridization analysis which revealed 21% genetic relatedness between strains PAC48T and PAC68T and 46% and 25%, respectively, between these strains and B. elkanii LMG 6134T. The nodD and nifH genes of strains PAC48T and PAC68T were phylogenetically divergent from those of bradyrhizobia species that nodulate soybean. Soybean was not nodulated by the novel Pachyrhizus isolates. Based on the genotypic and phenotypic data obtained in this study, the new strains represent two novel species for which the names Bradyrhizobium pachyrhizi sp. nov. (type strain PAC48T=LMG 24246T=CECT 7396T) and Bradyrhizobium jicamae sp. nov. (type strain PAC68T=LMG 24556T=CECT 7395T) are proposed.

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Phenotypic and Genotypic Characterization of Rhizobia from Diverse Geographical Origin that Nodulate Pachyrhizus species

Cited by 21 publications

References 42 publications

Genetic Diversity of Native Bradyrhizobia Isolated from Soybeans ( Glycine max L.) in Different Agricultural-Ecological-Climatic Regions of India

Genetic Diversity of Native Bradyrhizobia Isolated from Soybeans ( Glycine max L.) in Different Agricultural-Ecological-Climatic Regions of India

Phylogeny and taxonomy of a diverse collection of Bradyrhizobium strains based on multilocus sequence analysis of the 16S rRNA gene, ITS region and glnII, recA, atpD and dnaK genes

Bradyrhizobium pachyrhizi sp. nov. and Bradyrhizobium jicamae sp. nov., isolated from effective nodules of Pachyrhizus erosus

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