Symbiotic and Taxonomic Diversity of Rhizobia Isolated from Acacia tortilis subsp. raddiana in Africa

Ba, S.; Willems, Anne; Lajudie, Philippe de; Roché, Philippe; Jeder, H.; Quatrini, Paola; Neyra, Marc; Ferro, Myriam; Promé, Jean‐Claude; Gillis, Monique; Boivin-Masson, Catherine; Lorquin, Jean

doi:10.1078/0723-2020-00091

Cited by 57 publications

(23 citation statements)

References 45 publications

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“…Most of the molecules are substituted by a N-methyl and a carbamoyl group at the terminal nonreducing sugar. Although these structures are very similar to that produced by Acacia-nodulating ␣-rhizobia (Lorquin et al 1997;Ba et al 2002), C. taiwanensis has a restricted host range as compared with Acacia rhizobia (C. Masson-Boivin, unpubl. ), suggesting that other determinants may limit its host range.…”

Section: Nodulation and Nitrogen Fixationmentioning

confidence: 99%

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Amadou¹,

Pascal²,

Mangenot³

et al. 2008

Genome Res.

193

154

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We report the first complete genome sequence of a ␤-proteobacterial nitrogen-fixing symbiont of legumes, Cupriavidus taiwanensis LMG19424. The genome consists of two chromosomes of size 3.42 Mb and 2.50 Mb, and a large symbiotic plasmid of 0.56 Mb. The C. taiwanensis genome displays an unexpected high similarity with the genome of the saprophytic bacterium C. eutrophus H16, despite being 0.94 Mb smaller. Both organisms harbor two chromosomes with large regions of synteny interspersed by specific regions. In contrast, the two species host highly divergent plasmids, with the consequence that C. taiwanensis is symbiotically proficient and less metabolically versatile. Altogether, specific regions in C. taiwanensis compared with C. eutrophus cover 1.02 Mb and are enriched in genes associated with symbiosis or virulence in other bacteria. C. taiwanensis reveals characteristics of a minimal rhizobium, including the most compact (35-kb) symbiotic island (nod and nif) identified so far in any rhizobium. The atypical phylogenetic position of C. taiwanensis allowed insightful comparative genomics of all available rhizobium genomes. We did not find any gene that was both common and specific to all rhizobia, thus suggesting that a unique shared genetic strategy does not support symbiosis of rhizobia with legumes. Instead, phylodistribution analysis of more than 200 Sinorhizobium meliloti known symbiotic genes indicated large and complex variations of their occurrence in rhizobia and non-rhizobia. This led us to devise an in silico method to extract genes preferentially associated with rhizobia. We discuss how the novel genes we have identified may contribute to symbiotic adaptation.

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Section: Nodulation and Nitrogen Fixationmentioning

confidence: 99%

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Amadou¹,

Pascal²,

Mangenot³

et al. 2008

Genome Res.

193

154

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“…On the basis of studies performed in Senegal, A. senegal seems to be nodulated by M. plurifarium rather than Ensifer (Sinorhizobium) and Rhizobium. Ba et al (2002) showed that Nod factors of rhizobia isolated from Acacia tortilis subsp. raddiana in Africa are identical or very close to Nod factors produced by other fast-growing Acacia nodulating rhizobia i.e.…”

Section: Phylogeny Of Igs 16s-23s Rrnamentioning

confidence: 99%

“…Sinorhizobium terangae ORS1073 and M. plurifarium ORS1001 isolated from A. senegal (Lorquin et al, 1997), strain GRH2 isolated from Acacia cyanophylla (LopezLara et al, 1995) and Rhizobium tropici CFN299 and CIAT899 (Folch-Mallol et al, 1996) isolated from bean. Since, as A. senegal appears to have strict requirements in regard to Nod factors the rhizobia that nodulate it produce (Ba et al, 2002), the species seems to be mainly nodulated by a type of rhizobia according to the geographic position.…”

Section: Phylogeny Of Igs 16s-23s Rrnamentioning

confidence: 99%

Distribution and Diversity of Rhizobial Populations Associated with <i>Acacia senegal</i> (L.) Willd. Provenances in Senegalese Arid and Semiarid Regions

Bakhoum¹,

Roux²,

Diouf³

et al. 2014

OJF

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Distribution and diversity of rhizobial strains associated with Acacia senegal (L.) Willd. in relation to seed provenances in soils from arid (Dahra) and semiarid (Goudiry) zones of Senegal were investigated. PCR-RFLP performed on 16S-23S rDNA intergenic spacer (IGS) of nodule crude extracts revealed a high genetic diversity of rhizobial strains, which was higher in the semiarid region than in the arid region. The distribution of rhizobial populations was influenced by soil physical and chemical characteristics, and by A. senegal provenances as shown by the analysis of correspondence. In contrast, the phenotypic diversity of rhizobial strains was not correlated with the soil origin. The phylogenetic tree (performed by the maximum likelihood algorithm) of IGS 16S-23S sequences showed that most of the rhizobial strains nodulating A. senegal were closely related to Mesorhizobium plurifarium. Our results showed that rhizobial taxa associated with A. senegal were mainly distributed according to soil physical and chemical characteristics, and A. senegal provenances. A large subset of A. senegal root-nodulating bacteria had high diversity that correlated with the most favourable environmental conditions. Understanding the diversity and distribution of rhizobial strains may be exploited in the formulation of A. senegal inoculants for different seed provenances for resilience to soil stresses in various environmental conditions.

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“…These include Azorhizobium caulinodans (Dreyfus et al, 1988), Allorhizobium undicola (de Lajudie et al, 1998a), Ensifer saheli and Ensifer terangae (de Lajudie et al, 1994), Mesorhizobium plurifarium (de Lajudie et al, 1998b) and Methylobacterium nodulans (Sy et al, 2001), all of which were isolated from legumes growing in Senegal. Studies conducted in North African countries, notably in Tunisia and Morocco, also indicated that legumes growing in these countries are associated with strains related to the genera Mesorhizobium, Ensifer and Rhizobium (Ba et al, 2002;Khbaya et al, 1998;Mhamdi et al, 2002). Recently, two new species named Ensifer numidicus and Ensifer garamanticus, isolated from root nodules of legumes growing in infra-arid regions in Tunisia were described (Merabet et al, 2010).…”

mentioning

confidence: 99%

Mesorhizobium shonense sp. nov., Mesorhizobium hawassense sp. nov. and Mesorhizobium abyssinicae sp. nov., isolated from root nodules of different agroforestry legume trees

Degefu

Wolde-meskel

Liu

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

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A total of 18 strains, representing members of the genus Mesorhizobium , obtained from root nodules of woody legumes growing in Ethiopia, have been previously shown, by multilocus sequence analysis (MLSA) of five housekeeping genes, to form three novel genospecies. In the present study, the phylogenetic relationship between representative strains of these three genospecies and the type strains of their closest phylogenetic neighbours Mesorhizobium plurifarium , Mesorhizobium amorphae , Mesorhizobium septentrionale and Mesorhizobium huakuii was further evaluated using a polyphasic taxonomic approach. In line with our earlier MLSA of other housekeeping genes, the phylogenetic trees derived from the atpD and glnII genes grouped the test strains into three well-supported, distinct lineages that exclude all defined species of the genus Mesorhizobium . The DNA–DNA relatedness between the representative strains of genospecies I–III and the type strains of their closest phylogenetic neighbours was low (≤59 %). They differed from each other and from their closest phylogenetic neighbours by the presence/absence of several fatty acids, or by large differences in the relative amounts of particular fatty acids. While showing distinctive features, they were generally able to utilize a wide range of substrates as sole carbon and nitrogen sources. The strains belonging to genospecies I, II and III therefore represent novel species for which we propose the names Mesorhizobium shonense sp. nov., Mesorhizobium hawassense sp. nov. and Mesorhizobium abyssinicae sp. nov. The isolates AC39aT ( = LMG 26966T = HAMBI 3295T), AC99bT ( = LMG 26968T = HAMBI 3301T) and AC98cT ( = LMG 26967T = HAMBI 3306T) are proposed as type strains for the respective novel species.

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Symbiotic and Taxonomic Diversity of Rhizobia Isolated from Acacia tortilis subsp. raddiana in Africa

Cited by 57 publications

References 45 publications

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Distribution and Diversity of Rhizobial Populations Associated with <i>Acacia senegal</i> (L.) Willd. Provenances in Senegalese Arid and Semiarid Regions

Mesorhizobium shonense sp. nov., Mesorhizobium hawassense sp. nov. and Mesorhizobium abyssinicae sp. nov., isolated from root nodules of different agroforestry legume trees

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Symbiotic and Taxonomic Diversity of Rhizobia Isolated from Acacia tortilis subsp. raddiana in Africa

Cited by 57 publications

References 45 publications

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Genome sequence of the β-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia

Distribution and Diversity of Rhizobial Populations Associated with &lt;i&gt;Acacia senegal&lt;/i&gt; (L.) Willd. Provenances in Senegalese Arid and Semiarid Regions

Mesorhizobium shonense sp. nov., Mesorhizobium hawassense sp. nov. and Mesorhizobium abyssinicae sp. nov., isolated from root nodules of different agroforestry legume trees

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Distribution and Diversity of Rhizobial Populations Associated with <i>Acacia senegal</i> (L.) Willd. Provenances in Senegalese Arid and Semiarid Regions