Phylogenetic Relationships of Rhizobia Based on Citrate Synthase Gene Sequences

Hernández-Lucas, Ismael; Rogel-Hernández, Marco Antonio; Segovia, Lorenzo; Rojas-Jiménez, Keilor; Martı́nez-Romero, Esperanza

doi:10.1078/0723202042369893

Cited by 11 publications

(5 citation statements)

References 33 publications

(30 reference statements)

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…The gene should be easily amplified in a wide range of rhizobia using the same primers and amplification conditions. A similar approach has been previously used with gltA gene, coding for the citrate synthase; however, sequencing was not applicable to all rhizobial species studied (Hernández-Lucas et al 2004). We have then proposed the broadly distributed and well conserved glnII gene, coding for the glutamine synthetase 2 (EC = 6.3.1.2).…”

Section: Discussionmentioning

confidence: 95%

Genetic diversity of elite rhizobial strains of subtropical and tropical legumes based on the 16S rRNA and glnII genes

Neto

Ribeiro

Hungría

2010

World J Microbiol Biotechnol

View full text Add to dashboard Cite

Biodiversity of diazotrophic symbiotic bacteria in the tropics is a valuable but still poorly studied resource. The objective of this study was to determine if a second housekeeping gene, glnII, in addition to the 16S rRNA, can be employed to improve the knowledge about taxonomy and phylogeny of rhizobia. Twenty-three elite rhizobial strains, very effective in fixing nitrogen with twenty-one herbal and woody legumes (including species from fourteen tribes in the three subfamilies of the family Leguminosae) were selected for this study; all strains are used as commercial inoculants in Brazil. Complete sequences of the 16S rRNA and partial sequences (480 bp) of the glnII gene were obtained. The same primers and amplification conditions were successful for sequencing the glnII genes of bacteria belonging to five different rhizobial genera-Bradyrhizobium, Mesorhizobium, Methylobacterium, Rhizobium, Sinorhizobium)-positioned in distantly related branches. The analysis of the concatenated genes (16S rRNA + glnII) considerably improved information about phylogeny and taxonomy of rhizobia in comparison to the single analysis of the 16S rRNA. Nine strains might belong to new species. The complementary analysis of the glnII gene was successful with all strains and improved the phylogenetic clustering and clarified the taxonomic position of several strains. The strategy of including the analysis of glnII, in addition to the 16S rRNA, is cost- and time- effective for the characterization of large rhizobial culture collections or in surveys of many isolates.

show abstract

Section: Discussionmentioning

confidence: 95%

Genetic diversity of elite rhizobial strains of subtropical and tropical legumes based on the 16S rRNA and glnII genes

Neto

Ribeiro

Hungría

2010

World J Microbiol Biotechnol

View full text Add to dashboard Cite

show abstract

“…Previously, six of them had been partially characterized by ARDRA, SDS-PAGE and 16S rRNA gene sequencing (Zakhia et al, 2004). Genes for MLSA were chosen according to previous taxonomic and phylogenetic studies: recA (recombinase A) and atpD (ATP synthase beta subunit) were used in a phylogenetic study of the genera Agrobacterium and Rhizobium (Gaunt et al, 2001); glnA (glutamine synthase) was used by Turner & Young (2000) and gltA (citrate synthase) was used by Hernandez-Lucas et al (2004). In a study evaluating the taxonomic potential of ten housekeeping genes, Martens et al (2007Martens et al ( , 2008 found these genes and additionally thrC (threonine synthase) useful for identification and for the inference of phylogenetic relationships of species of the genus Ensifer.…”

Section: Discussionmentioning

confidence: 99%

Multilocus sequence analysis of root nodule isolates from Lotus arabicus (Senegal), Lotus creticus, Argyrolobium uniflorum and Medicago sativa (Tunisia) and description of Ensifer numidicus sp. nov. and Ensifer garamanticus sp. nov.

Merabet

Martens

Mahdhi

et al. 2010

International Journal of Systematic and Evolutionary Microbiology

View full text Add to dashboard Cite

Nine isolates from Argyrolobium uniflorum, Lotus creticus, Medicago sativa (Tunisia) and Lotus arabicus (Senegal) were analysed by multilocus sequence analysis (MLSA) of five housekeeping genes (recA, atpD, glnA, gltA and thrC), the 16S rRNA gene and the nodulation gene nodA. Analysis of the individual and concatenated gene sequences demonstrated that the nine new strains constituted three stable, well-supported (bootstrap and gene sequence similarity values) monophyletic clusters, A, B and C, all belonging to the branch of the genus Ensifer, regardless of the phylogenetic reconstruction method used (maximum likelihood, maximum-parsimony, neighbour-joining). The three groups were further characterized by API 100 auxanographic tests, host specificity and nodA gene sequence analysis. On the basis of these data, clusters A and C are suggested as representing two novel species within the genus Ensifer, for which the names Ensifer numidicus sp. nov. (type strain ORS 1407T=LMG 24690T=CIP 109850T) and Ensifer garamanticus sp. nov. (type strain ORS 1400T=LMG 24692T=CIP 109916T) are proposed. The cluster B strains were assigned to Ensifer adhaerens genomovar A.

show abstract

“…However, two types, A and B, were recognized to account for these differences. Other species are now recognized to be close relatives of R. tropici , such as Rhizobium lusitanum (Valverde et al , 2006), Rhizobium multihospitium (Han et al , 2008), Rhizobium miluonense (Gu et al , 2008) and Rhizobium rhizogenes (Hernández-Lucas et al , 2004; Velázquez et al , 2010). Some of these species are either more closely related to type A or to type B strains in phylogenetic trees (Han et al , 2008; Valverde et al , 2006; Velázquez et al , 2010).…”

mentioning

confidence: 99%

Reclassification of Rhizobium tropici type A strains as Rhizobium leucaenae sp. nov.

Ribeiro

Rogel

López-López

et al. 2012

International Journal of Systematic and Evolutionary Microbiology

Self Cite

View full text Add to dashboard Cite

show abstract

Phylogenetic Relationships of Rhizobia Based on Citrate Synthase Gene Sequences

Cited by 11 publications

References 33 publications

Genetic diversity of elite rhizobial strains of subtropical and tropical legumes based on the 16S rRNA and glnII genes

Genetic diversity of elite rhizobial strains of subtropical and tropical legumes based on the 16S rRNA and glnII genes

Multilocus sequence analysis of root nodule isolates from Lotus arabicus (Senegal), Lotus creticus, Argyrolobium uniflorum and Medicago sativa (Tunisia) and description of Ensifer numidicus sp. nov. and Ensifer garamanticus sp. nov.

Reclassification of Rhizobium tropici type A strains as Rhizobium leucaenae sp. nov.

Contact Info

Product

Resources

About