Trends in Rhizobial Evolution and Some Taxonomic Remarks

Martínez‐Romero, Julio; Ormeño‐Orrillo, Ernesto; Rogel, Marco A.; López-López, Aline; Martı́nez-Romero, Esperanza

doi:10.1007/978-3-642-12340-5_18

Cited by 11 publications

(9 citation statements)

References 83 publications

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“…Probability ranges (P50.01) of gene identities within and between species (interspecies and intraspecies variability) were estimated to discriminate between species, as described previously (Lloret et al, 2007;Martínez-Romero et al 2010). Intraspecies 99 % confidence intervals for the three new lineages and the three genes considered (atpD, recA and rpoB) showed that the variability of each gene is significantly smaller in a single lineage (intraspecies) than among closely related species (Fig.…”

Section: R Rincó N-rosales and Othersmentioning

confidence: 99%

Rhizobium calliandrae sp. nov., Rhizobium mayense sp. nov. and Rhizobium jaguaris sp. nov., rhizobial species nodulating the medicinal legume Calliandra grandiflora

Rincón-Rosales

Villalobos-Escobedo

Rogel

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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Calliandra grandiflora has been used as a medicinal plant for thousands of years in Mexico. Rhizobial strains were obtained from root nodules of C. grandiflora collected from different geographical regions in Chiapas and characterized by BOX-PCR, amplified rDNA restriction analysis (ARDRA) and 16S rRNA gene sequence analysis. Most isolates corresponded to members of the genus Rhizobium and those not related to species with validly published names were further characterized by recA, atpD, rpoB and nifH gene phylogenies, phenotypic and DNA–DNA hybridization analyses. Three novel related species of the genus Rhizobium within the ‘ Rhizobium tropici group’ share the same symbiovar that may be named sv. calliandrae. The names proposed for the three novel species are Rhizobium calliandrae sp. nov. (type strain, CCGE524T = ATCC BAA-2435T = CIP 110456T = LBP2-1T), Rhizobium mayense sp. nov. (type strain, CCGE526T = ATCC BAA-2446T = CIP 110454T = NSJP1-1T) and Rhizobium jaguaris sp. nov. (type strain, CCGE525T = ATCC BAA-2445T = CIP 110453T = SJP1-2T).

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Section: R Rincó N-rosales and Othersmentioning

confidence: 99%

Rhizobium calliandrae sp. nov., Rhizobium mayense sp. nov. and Rhizobium jaguaris sp. nov., rhizobial species nodulating the medicinal legume Calliandra grandiflora

Rincón-Rosales

Villalobos-Escobedo

Rogel

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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“…On the other hand, rhizobia-induced nodulation and the corresponding nodulation ( nod ) genes had a more recent origin, arising with the evolution of the host legumes [7]. nod and nif genes are contained in symbiotic plasmids or symbiotic islands.…”

Section: Introductionmentioning

confidence: 99%

Genomic basis of broad host range and environmental adaptability of Rhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 which are used in inoculants for common bean (Phaseolus vulgaris L.)

et al. 2012

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BackgroundRhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 are α-Proteobacteria that establish nitrogen-fixing symbioses with a range of legume hosts. These strains are broadly used in commercial inoculants for application to common bean (Phaseolus vulgaris) in South America and Africa. Both strains display intrinsic resistance to several abiotic stressful conditions such as low soil pH and high temperatures, which are common in tropical environments, and to several antimicrobials, including pesticides. The genetic determinants of these interesting characteristics remain largely unknown.ResultsGenome sequencing revealed that CIAT 899 and PRF 81 share a highly-conserved symbiotic plasmid (pSym) that is present also in Rhizobium leucaenae CFN 299, a rhizobium displaying a similar host range. This pSym seems to have arisen by a co-integration event between two replicons. Remarkably, three distinct nodA genes were found in the pSym, a characteristic that may contribute to the broad host range of these rhizobia. Genes for biosynthesis and modulation of plant-hormone levels were also identified in the pSym. Analysis of genes involved in stress response showed that CIAT 899 and PRF 81 are well equipped to cope with low pH, high temperatures and also with oxidative and osmotic stresses. Interestingly, the genomes of CIAT 899 and PRF 81 had large numbers of genes encoding drug-efflux systems, which may explain their high resistance to antimicrobials. Genome analysis also revealed a wide array of traits that may allow these strains to be successful rhizosphere colonizers, including surface polysaccharides, uptake transporters and catabolic enzymes for nutrients, diverse iron-acquisition systems, cell wall-degrading enzymes, type I and IV pili, and novel T1SS and T5SS secreted adhesins.ConclusionsAvailability of the complete genome sequences of CIAT 899 and PRF 81 may be exploited in further efforts to understand the interaction of tropical rhizobia with common bean and other legume hosts.

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“…Indeed, with rapidly increasing numbers of rhizobial strains having their genomes published, and with sequences becoming more accurate and reliable, some relationships within genera will inevitably change, as has already been shown for R. etli CFN42 [76]. Previous reports have discussed the origin of Rhizobia using partial sequences of symbiosis genes but the present study is the first to examine them in terms of whole genome sequences [13,30,31,[77][78][79][80].…”

Section: Discussionmentioning

confidence: 92%

“…Therefore, we could suggest that the symbotic genes evolved from gene duplication, and gene transfer occurred later within two or one clades resulting from the interaction between Rhizobia, legumes, and their environment. In support of this, a 410 kb symbiosis-relevant region of the Bradyrhizobium japonicum chromosome was suggested to be comprised of DNA fragments from different origins by comparing it with other free-living bacteria [76,[84][85][86][87][88]. On the other hand, there are rhizobial strains where the chromosome-borne symbiosis genes are conserved and stable.…”

Section: Discussionmentioning

confidence: 99%

The Structure and Evolution of Beta-Rhizobial Symbiotic Genes Deduced from Their Complete Genomes

Zheng¹,

Wang²,

Rr³

et al. 2017

Immunome Res

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Trends in Rhizobial Evolution and Some Taxonomic Remarks

Cited by 11 publications

References 83 publications

Rhizobium calliandrae sp. nov., Rhizobium mayense sp. nov. and Rhizobium jaguaris sp. nov., rhizobial species nodulating the medicinal legume Calliandra grandiflora

Rhizobium calliandrae sp. nov., Rhizobium mayense sp. nov. and Rhizobium jaguaris sp. nov., rhizobial species nodulating the medicinal legume Calliandra grandiflora

Genomic basis of broad host range and environmental adaptability of Rhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 which are used in inoculants for common bean (Phaseolus vulgaris L.)

The Structure and Evolution of Beta-Rhizobial Symbiotic Genes Deduced from Their Complete Genomes

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