African origin of Bradyrhizobium populations nodulating Bambara groundnut (Vigna subterranea L. Verdc) in Ghanaian and South African soils

• Published in: PloS one 2017-09, Vol.12 (9), p.e0184943-e0184943
• Main Authors: Puozaa, Doris K, Jaiswal, Sanjay K, Dakora, Felix D
• Format: Article
• Language: English
• Subjects: Agriculture; Alnus rubra; Bambara groundnut; Biology and Life Sciences; Bradyrhizobium; Bradyrhizobium - genetics; Bradyrhizobium - physiology; Cereals; Computer and Information Sciences; Cream; Cropping sequence; Ecology and Environmental Sciences; Experiments; Flavonoids; Gene expression; Gene transfer; Genetic aspects; Genomes; Ghana; Glycine max; Isoflavones; Legumes; Multilocus sequence typing; NifH gene; Nitrogen; Peanuts; Phylogeny; Physiological aspects; Pigmentation; Polymorphism; Polymorphism, Restriction Fragment Length - genetics; Pyruvic acid; RecA protein; Recombination; Research and analysis methods; Restriction fragment length polymorphism; Rhizobium; RNA, Ribosomal, 16S - genetics; Root Nodules, Plant - microbiology; rRNA 16S; Savannahs; Seeds; Sequence Analysis, DNA; Soil chemistry; Soil environment; Soil Microbiology; South Africa; Soybeans; Vigna - microbiology; Vigna subterranea; Vigna unguiculata
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0184943

Flavonoids secreted by legumes play a major role as signal molecules for attracting compatible rhizobia. The aim of this study was to assess and understand the diversity of microsymbionts nodulating Bambara groundnut (Vigna subterranea L. Verdc.) landraces of different seedcoat colours using restriction fragment length polymorphism and phylogenetic analysis. Seedcoat pigmentation of landraces had effect on the diversity of microsymbionts of Bambara groundnut. Even when planted together in one hole, nodulating bradyrhizobia clustered differently. For example, 16S rDNA-RFLP typing of rhizobial samples TUTVSBLM.I, TUTVSCRM.I and TUTVSRDM.I originating respectively from Black, Cream and Red landraces that were co-planted in the same hole at Manga in the Sudano-sahelian savanna, as well as TUTVSCRK.I and TUTVSRDK.I respectively from Cream and Red landraces co-planted at Kpalisogu in the Guinea savanna, revealed different 16S rDNA- RFLP types. Phylogenetic analysis of 16S rDNA, glnII, recA and atpD sequences showed that Vigna subterranea was nodulated specifically by a diverse group of Bradyrhizobium species (e.g. Bradyrhizobium vignae, and a novel group of Bradyrhizobium spp.) in soils from Ghana and South Africa. The recA gene phylogeny showed incongruency with the other housekeeping genes, indicating the possibility of lateral gene transfer and/or recombination events. The grouping of isolates according to symbiotic gene (nifH and nodD) phylogenies revealed inter- and intra-specific symbiotic plasmid transfer and different evolutionary history. The results also showed that a cropping history and physico-chemical environment of soils increased bradyrhizobial diversity in Ghana and South Africa.