Distribution of Symbiotic Genotypes in Rhizobium leguminosarum biovar viciae Populations Isolated Directly from Soils

Louvrier, P; Laguerre, Gisèle; Amarger, Noëlle

doi:10.1128/aem.62.11.4202-4205.1996

Cited by 45 publications

(21 citation statements)

References 27 publications

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“…trifolii, viciae and phaseoli strains. This grouping disagreed with the clusters obtained using PCR-RFLP of nod and nif genes which were in accordance with the biovar classi¢cation [95,96]. Since nod and nif genes are found on the Sym plasmid which is exchanged between soil microbial populations, and speci¢c interactions may occur between chromosomal and plasmidic markers [97], it is highly probable that the biovar classi¢cation system of R. leguminosarum is based at least partially on features that are subject to gene transfer.…”

Section: Bradyrhizobium Sinorhizobium and Rhizobiumcontrasting

confidence: 66%

Ecology and evolution of bacterial microdiversity

Schloter

2000

FEMS Microbiology Reviews

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Using high resolution molecular fingerprinting techniques like random amplification of polymorphic DNA, repetitive extragenic palindromic PCR and multilocus enzyme electrophoresis, a high bacterial diversity below the species and subspecies level (microdiversity) is revealed. It became apparent that bacteria of a certain species living in close association with different plants either as associated rhizosphere bacteria or as plant pathogens or symbiotic organisms, typically reflect this relationship in their genetic relatedness. The strain composition within a population of soil bacterial species at a given field site, which can be identified by these high resolution fingerprinting techniques, was markedly influenced by soil management and soil features. The observed bacterial microdiversity reflected the conditions of the habitat, which select for better adapted forms. In addition, influences of spatial separation on specific groupings of bacteria were found, which argue for the occurrence of isolated microevolution. In this review, examples are presented of bacterial microdiversity as influenced by different ecological factors, with the main emphasis on bacteria from the natural environment. In addition, information available from some of the first complete genome sequences of bacteria (Helicobacter pylori and Escherichia coli) was used to highlight possible mechanisms of molecular evolution through which mutations are created; these include mutator enzymes. Definitions of bacterial species and subspecies ranks are discussed in the light of detailed information from whole genome typing approaches.

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Section: Bradyrhizobium Sinorhizobium and Rhizobiumcontrasting

confidence: 66%

Ecology and evolution of bacterial microdiversity

Schloter

2000

FEMS Microbiology Reviews

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“…However, current rhizobial diversity estimates are mostly based on analyses of legume root-nodule isolates. Few studies have explored their diversity in legume rhizospheres (Segovia et al, 1991;Sachs et al, 2009) or directly in soils, using cultivation-dependent (Louvrier et al, 1996;Sullivan et al, 1996) or independent (Zézé et al, 2001;Sarita et al, 2005) approaches. They suggest that rhizobial diversity in non-nodule environments is notably higher than that found within them, as nodules are frequently occupied by a limited number of dominant epidemic clones of a few species (Silva et al, 1999;McInnes et al, 2004;Vinuesa et al, 2005a).…”

Section: Introductionmentioning

confidence: 99%

“…This suggests that specific host and microbe factors strongly influence the outcome of the interaction and cause the localized proliferation, in space and time, of lowabundance rhizobial species and genotypes. Known rhizobial factors contributing to their dominance in hostassociated habitats include numerical dominance in the bulk soil (Thies et al, 1991;Louvrier et al, 1996), high rhizosphere competence (Albareda et al, 2006;Barr et al, 2008;Ramachandran et al, 2011) or better competitiveness for nodule occupancy (Triplett and Sadowsky, 1992). Additionally, host-specific selection (partner choice) of rhizobial genotypes during the early infection process (Simms and Taylor, 2002;Zanetti et al, 2010;Regus et al, 2014), or host sanctions imposed on poor fixers after nodules have developed (Kiers and Denison, 2008;Marco et al, 2009;Sachs et al, 2010;Akcay and Simms, 2011) are known to affect species and strain abundances in host-associated habitats (Thrall et al, 2011).…”

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confidence: 99%

Diversity patterns of Rhizobiaceae communities inhabiting soils, root surfaces and nodules reveal a strong selection of rhizobial partners by legumes

Miranda-Sánchez

Rivera

Vinuesa

2015

Environmental Microbiology

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Current knowledge about rhizobial diversity patterns in non-nodule habitats is scarce, limiting our understanding of basic aspects of rhizobial ecology like competitiveness for nodule occupancy and host effects on community structure. We used a combination of cultivation-dependent and independent approaches to analyse alpha and beta diversity patterns of Rhizobiaceae communities from a conserved seasonally dry tropical forest site in central Mexico and two nearby agricultural fields. Lineage-specific recA amplicon libraries were generated from soil DNA and their sequences compared with those from root surface and nodule isolates recovered in trapping experiments from two native Acacia species and two Phaseolus vulgaris cultivars. Rarefaction analyses revealed that Rhizobiaceae diversity in soils is larger than on root surfaces, and smallest in nodules. A 'rare biosphere'-like distribution of species was found in the three habitats. Multivariate statistical analyses demonstrated that the plant genus exerted a stronger influence than the land-usage regime on the diversity of rhizobia associated with hosts. Rhizobium etli was the dominant Rhizobiaceae found in the soil libraries. It dominated nodulation of Acacia spp. and predominately harboured symbiovar mimosae-like nodC genes. A novel Rhizobium lineage (Rsp1) dominated bean nodulation. Specialist and generalist genotypes for host nodulation were detected in both species.

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“…The symbiosis genes of Rhizobium and Sinorhizobium are located on symbiosis plasmids and transfer of these plasmids between strains has been demonstrated in laboratory conditions (Hynes et al, 1986;Martínez et al, 1987;Kaijalainen & Lindström, 1989;Rogel et al, 2001), in cultivated soils (Young & Wexler, 1988;Laguerre et al, 1992;Louvrier et al, 1996) and in natural soils (Wernegreen & Riley, 1999) and may even transform a saprophyte into a symbiont (Sullivan et al, 1995;Tan et al, 2001). In contrast, the symbiosis genes of Bradyrhizobium and Mesorhizobium species are located in chromosomal symbiosis islands, the exceptions described to date being Mesorhizobium amorphae (Wang et al, 1999) and Mesorhizobium huakuii (Zhang et al, 2000).…”

Section: Introductionmentioning

confidence: 99%

Chickpea rhizobia symbiosis genes are highly conserved across multiple Mesorhizobium species

Laranjo¹,

Alexandre²,

Rivas³

et al. 2008

FEMS Microbiology Ecology

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Chickpea has been considered as a restrictive host for nodulation by rhizobia. However, recent studies have reported that several Mesorhizobium species may effectively nodulate chickpea. With the purpose of investigating the evolutionary relationships between these different species with the ability of nodulating the same host, we analysed 21 Portuguese chickpea rhizobial isolates. Symbiosis genes nifH and nodC were sequenced and used for phylogenetic studies. Symbiotic effectiveness was determined to evaluate its relationship with symbiosis genes. The comparison of 16S rRNA gene-based phylogeny with the phylogenies based on symbiosis genes revealed evidence of lateral transfer of symbiosis genes across different species. Chickpea is confirmed as a nonpromiscuous host. Although chickpea is nodulated by many different species, they share common symbiosis genes, suggesting recognition of only a few Nod factors by chickpea. Our results suggest that sequencing of nifH or nodC genes can be used for rapid detection of chickpea mesorhizobia.

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Distribution of Symbiotic Genotypes in Rhizobium leguminosarum biovar viciae Populations Isolated Directly from Soils

Cited by 45 publications

References 27 publications

Ecology and evolution of bacterial microdiversity

Ecology and evolution of bacterial microdiversity

Diversity patterns of Rhizobiaceae communities inhabiting soils, root surfaces and nodules reveal a strong selection of rhizobial partners by legumes

Chickpea rhizobia symbiosis genes are highly conserved across multiple Mesorhizobium species

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