title: Phylogenetic diversity based on rrs, atpD, recA genes and 16S-23S intergenic sequence analyses of rhizobial strains isolated from Vicia faba and Pisum sativum in Peru.
abstract: In this study 17 isolates from effective nodules of Vicia faba and Pisum sativum var. macrocarpum growing in different soils from Peru were isolated and characterized. The isolates, presenting 11 different RAPD profiles, were distributed in three groups on the basis of their 16S-RFLP patterns. The 16S rRNA gene sequences of strains from 16S-RFLP groups I, II and III were closely related (identities higher than 99.5%) to Rhizobium leguminosarum bv. trifolii DSM 30141 (=ATCC 14480), R. leguminosarum bv. viciae DSM 30132(T) and Rhizobium etli CFN42(T) (=USDA 9032(T)), respectively. The analysis of the 16S-23S intergenic spacer (ITS) and two housekeeping genes, atpD and recA, confirmed the identification of strains from group I, however those from groups II and III were phylogenetically divergent to strains DSM 30132(T) and CFN42(T). These results support the fact that the 16S rRNA gene is not adequate for identification at species level within genus Rhizobium and suggest the existence of putative new species within the phylogenetic group of R. leguminosarum. They also confirm the need of a taxonomic revision of R. leguminosarum since the reference strains of the three biovars included in this study are phylogenetically divergent according to their ITS, atpD and recA gene sequences.
authors.affiliation: Laboratorio de Ecología Microbiana y Biotecnología Marino Tabusso, Departamento de Biología, Universidad Nacional Agraria La Molina, Lima, Peru.
authors.forename: Nery
authors.initials: N
authors.lastname: Santillana
authors.forename: Martha Helena
authors.initials: MH
authors.lastname: Ramírez-Bahena
authors.forename: Paula
authors.initials: P
authors.lastname: García-Fraile
authors.forename: Encarna
authors.initials: E
authors.lastname: Velázquez
authors.forename: Doris
authors.initials: D
authors.lastname: Zúñiga
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics; D044822:Biodiversity; D016000:Cluster Analysis; D016172:DNA Fingerprinting; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D021903:DNA, Ribosomal Spacer / Q000737:chemistry / Q000235:genetics; D008969:Molecular Sequence Data; D018532:Pisum sativum / Q000382:microbiology*; D010568:Peru; D010802:Phylogeny; D018517:Plant Roots / Q000382:microbiology; D012150:Polymorphism, Restriction Fragment Length; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D019105:Random Amplified Polymorphic DNA Technique; D012231:Rhizobium / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification*; D017422:Sequence Analysis, DNA; D017385:Sequence Homology; D031307:Vicia faba / Q000382:microbiology*
chemical_list: D001426:Bacterial Proteins; D004269:DNA, Bacterial; D004275:DNA, Ribosomal; D021903:DNA, Ribosomal Spacer; D012336:RNA, Ribosomal, 16S