Diversity patterns of <scp><i>R</i></scp><i>hizobiaceae</i> communities inhabiting soils, root surfaces and nodules reveal a strong selection of rhizobial partners by legumes

Miranda-Sánchez, Fabiola; Rivera, Javier; Vinuesa, Pablo

doi:10.1111/1462-2920.13061

Cited by 45 publications

(37 citation statements)

References 91 publications

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“…Consistent with the results of Miranda‐Sanchez et al . (), our results demonstrated that the nodule bacteria (rhizobia) undergo a hierarchical filtration through bulk soil to the root by legume plants. In addition, our study indicated that both nonsymbiotic and symbiotic nodule endophytes are subjected to hierarchical filtration.…”

Section: Discussionsupporting

confidence: 55%

“…); and nodule/bulk soil rhizobial communities of Acacia and Phaseolus vulgaris (Miranda‐Sanchez et al . ). This filtration was related to the effects of roots on nutrient supply and the physicochemical features of the rhizosphere as well as to the change in environment from soil to endosphere (Gottel et al .…”

Section: Discussionmentioning

confidence: 97%

“…This phenomenon was also observed in Phaseolus vulgaris (Miranda‐Sanchez et al . ). The detection of Proteobacteria, Actinobacteria, Firmicutes and Bacteroidetes as the main phyla in the nodules of both plant species demonstrated the common preference of the nodules for the endophytes (Fig.…”

Section: Discussionmentioning

confidence: 97%

“…; Miranda‐Sanchez et al . ), and the changes in microbiota between the nearby rhizocompartments might also be related to specified metabolic functions (Young et al . ).…”

Section: Discussionmentioning

confidence: 99%

“…The application of high‐throughput sequencing of metagenomic DNA has revealed that leguminous species could significantly influence the diversity patterns of Rhizobiaceae communities inhabiting soils, root surfaces and nodules (Miranda‐Sanchez et al . ). However, the diversity and specificity of nonsymbiotic microbes associated with legume roots, their interactions with the symbiotic microbes and their responses to soil conditions and plant growth remain unclear.…”

Section: Introductionmentioning

confidence: 97%

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Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments

et al. 2017

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The microbiomes of rhizocompartments (nodule endophytes, root endophytes, rhizosphere and root zone) in soya bean and alfalfa were analysed using high-throughput sequencing to investigate the interactions among legume species, microorganisms and soil types. A clear hierarchical filtration of microbiota by plants was observed in the four rhizocompartments - the nodule endosphere, root endosphere, rhizosphere and root zone - as demonstrated by significant variations in the composition of the microbial community in the different compartments. The rhizosphere and root zone microbial communities were largely influenced by soil type, and the nodule and root endophytes were primarily determined by plant species. Diverse microbes inhabited the root nodule endosphere, and the corresponding dominant symbiotic rhizobia belonged to Ensifer for alfalfa and Ensifer-Bradyrhizobium for soya bean. The nonsymbiotic nodule endophytes were mainly Proteobacteria, Actinobacteria, Firmicutes and Bacteroidetes. The variation in root microbial communities was also affected by the plant growth stage. In summary, this study demonstrated that the enrichment process of nodule endophytes follows a hierarchical filtration and that the bacterial communities in nodule endophytes vary according to the plant species.

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Section: Discussionsupporting

confidence: 55%

Section: Discussionmentioning

confidence: 97%

Section: Discussionmentioning

confidence: 97%

“…; Miranda‐Sanchez et al . ), and the changes in microbiota between the nearby rhizocompartments might also be related to specified metabolic functions (Young et al . ).…”

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 97%

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Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments

et al. 2017

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Composition of soil Frankia assemblages across ecological drivers parallels that of nodule assemblages in Alnus incana ssp. tenuifolia in interior Alaska

Anderson,

Taylor,

Olson

et al. 2024

Ecology and Evolution

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In root nodule symbioses (RNS) between nitrogen (N)‐fixing bacteria and plants, bacterial symbionts cycle between nodule‐inhabiting and soil‐inhabiting niches that exert differential selection pressures on bacterial traits. Little is known about how the resulting evolutionary tension between host plants and symbiotic bacteria structures naturally occurring bacterial assemblages in soils. We used DNA cloning to examine soil‐dwelling assemblages of the actinorhizal symbiont Frankia in sites with long‐term stable assemblages in Alnus incana ssp. tenuifolia nodules. We compared: (1) phylogenetic diversity of Frankia in soil versus nodules, (2) change in Frankia assemblages in soil versus nodules in response to environmental variation: both across succession, and in response to long‐term fertilization with N and phosphorus, and (3) soil assemblages in the presence and absence of host plants. Phylogenetic diversity was much greater in soil‐dwelling than nodule‐dwelling assemblages and fell into two large clades not previously observed. The presence of host plants was associated with enhanced representation of genotypes specific to A. tenuifolia, and decreased representation of genotypes specific to a second Alnus species. The relative proportion of symbiotic sequence groups across a primary chronosequence was similar in both soil and nodule assemblages. Contrary to expectations, both N and P enhanced symbiotic genotypes relative to non‐symbiotic ones. Our results provide a rare set of field observations against which predictions from theoretical and experimental work in the evolutionary ecology of RNS can be compared.

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Genotypic variation in resource exchange, use, and production traits in the legume–rhizobia mutualism

Calvert,

Hoque,

Wood

2024

Ecology and Evolution

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Mutualisms, reciprocally beneficial interactions between two or more species, are ubiquitous in nature. A common feature of mutualisms is extensive context‐dependent variation in fitness outcomes. This context‐dependency is hypothesized to stem from the environment's mediation of the relative costs and benefits associated with mutualisms. However, traits related to the exchange of goods and services in mutualisms have received little attention in comparison to net fitness outcomes. In this study, we quantified the contribution of host and symbiont genotypes to variation in resource exchange, use, and production traits measured in the host using the model mutualism between legumes and nitrogen‐fixing rhizobia. We predicted that plant genotype × rhizobia genotype (G × G) effects would be common to resource exchange traits because resource exchange is hypothesized to be governed by both interacting partners through bargaining. On the other hand, we predicted that plant genotype effects would dominate host resource use and production traits because these traits are only indirectly related to the exchange of resources. Consistent with our prediction for resource exchange traits, but not our prediction for resource use and production traits, we found that rhizobia genotype and G × G effects were the most common sources of variation in the traits that we measured. The results of this study complement the commonly observed phenomenon of G × G effects for fitness by showing that numerous mutualism traits also exhibit G × G variation. Furthermore, our results highlight the possibility that the exchange of resources as well as how partners use and produce traded resources can influence the evolution of mutualistic interactions. Our study lays the groundwork for future work to explore the relationship between resource exchange, use and production traits and fitness (i.e., selection) to test the competing hypotheses proposed to explain the maintenance of fitness variation in mutualisms.

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

Cited by 45 publications

References 91 publications

Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments

Two cultivated legume plants reveal the enrichment process of the microbiome in the rhizocompartments

Composition of soil Frankia assemblages across ecological drivers parallels that of nodule assemblages in Alnus incana ssp. tenuifolia in interior Alaska

Genotypic variation in resource exchange, use, and production traits in the legume–rhizobia mutualism

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