Structure and diversity among rhizobial strains, populations and communities?a review

McInnes, Alison; Thies, Janice E.; Abbott, Lynette K.; Howieson, John

doi:10.1016/j.soilbio.2004.04.011

Cited by 68 publications

(57 citation statements)

References 63 publications

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“…Among the dominant haplotypes, six were endemic and seven were epidemic including haplotype G03_R01 that was dominant at most sites (10/14), exhibited a spatial spread of (Table 1). Several studies have uncovered rhizobial genotypes that achieve high frequency at localized sites [33,51,64], but haplotype G03_R01 dominates both locally and also across major ecological boundaries including mountain ranges and areas of inhospitable habitat. It is striking that haplotype G03_R01 was found in sites that vary markedly in their patterns of rainfall, temperature, plant community, and key soil nutrients [65,66], especially given that most of the Bradyrhizobium lineages that we uncovered were relatively localized in their distribution.…”

Section: Discussionmentioning

confidence: 99%

“…Using the concatenated dataset, we calculated strain richness (number of unique haplotypes/number of isolates) and strain dominance (abundance of each haplotype/number of isolates) analogues of species richness and evenness [51]. For each of the 14 field collection sites, haplotypes were defined as dominant if they were collected at least five times and represented at least 10 % of the total isolates at that site.…”

Section: Sequence Statisticsmentioning

confidence: 99%

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Epidemic Spread of Symbiotic and Non-Symbiotic Bradyrhizobium Genotypes Across California

et al. 2015

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The patterns and drivers of bacterial strain dominance remain poorly understood in natural populations. Here, we cultured 1292 Bradyrhizobium isolates from symbiotic root nodules and the soil root interface of the host plant Acmispon strigosus across a >840-km transect in California. To investigate epidemiology and the potential role of accessory loci as epidemic drivers, isolates were genotyped at two chromosomal loci and were assayed for presence or absence of accessory Bsymbiosis island^loci that encode capacity to form nodules on hosts. We found that Bradyrhizobium populations were very diverse but dominated by few haplotypeswith a single Bepidemic^haplotype constituting nearly 30 % of collected isolates and spreading nearly statewide. In many Bradyrhizobium lineages, we inferred presence and absence of the symbiosis island suggesting recurrent evolutionary gain and or loss of symbiotic capacity. We did not find statistical phylogenetic evidence that the symbiosis island acquisition promotes strain dominance and both symbiotic and nonsymbiotic strains exhibited population dominance and spatial spread. Our dataset reveals that a strikingly few Bradyrhizobium genotypes can rapidly spread to dominate a landscape and suggests that these epidemics are not driven by the acquisition of accessory loci as occurs in key human pathogens.

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Section: Discussionmentioning

confidence: 99%

Section: Sequence Statisticsmentioning

confidence: 99%

Epidemic Spread of Symbiotic and Non-Symbiotic Bradyrhizobium Genotypes Across California

et al. 2015

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“…Rhizobial `population diversity' or `strain richness' may be estimated using numerous methods, and hence its assessment is affected by the discriminatory power of the strain typing method [66]. Despite methodological issues, which will not be addressed, it is worth noting that rhizobia can either be isolated from nodules of plants grown at a defined site, or directly from soil.…”

Section: The Diversity Of Local Rhizobial Populationsmentioning

confidence: 99%

Rhizobial communities in symbiosis with legumes: genetic diversity, competition and interactions with host plants

Wielbo

2012

Open Life Sciences

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AbstractThe term ‘Rhizobium-legume symbiosis’ refers to numerous plant-bacterial interrelationships. Typically, from an evolutionary perspective, these symbioses can be considered as species-to-species interactions, however, such plant-bacterial symbiosis may also be viewed as a low-scale environmental interplay between individual plants and the local microbial population. Rhizobium-legume interactions are therefore highly important in terms of microbial diversity and environmental adaptation thereby shaping the evolution of plant-bacterial symbiotic systems. Herein, the mechanisms underlying and modulating the diversity of rhizobial populations are presented. The roles of several factors impacting successful persistence of strains in rhizobial populations are discussed, shedding light on the complexity of rhizobial-legume interactions.

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“…Understanding the relationships between environmental adaptation, population dynamics and genomic diversity is a key goal of the field of microbial ecology (McInnes et al, 2004;Cordero and Polz, 2014). The study of microbial symbioses has provided a valuable platform from which this goal can be addressed.…”

Section: Introductionmentioning

confidence: 99%

A genomic comparison of 13 symbiotic Vibrio fischeri isolates from the perspective of their host source and colonization behavior

et al. 2016

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Newly hatched Euprymna scolopes squid obtain their specific light-organ symbionts from an array of Vibrio (Allivibrio) fischeri strains present in their environment. Two genetically distinct populations of this squid species have been identified, one in Kaneohe Bay (KB), and another in Maunaloa Bay (MB), Oahu. We asked whether symbionts isolated from squid in each of these populations outcompete isolates from the other population in mixed-infection experiments. No relationship was found between a strain's host source (KB or MB) and its ability to competitively colonize KB or MB juveniles in a mixed inoculum. Instead, two colonization behaviors were identified among the 11 KB and MB strains tested: a 'dominant' outcome, in which one strain outcompetes the other for colonization, and a 'sharing' outcome, in which two strains co-colonize the squid. A genome-level comparison of these and other V. fischeri strains suggested that the core genomic structure of this species is both syntenous and highly conserved over time and geographical distance. We also identified~250 Kb of sequence, encoding 194 dispersed orfs, that was specific to those strains that expressed the dominant colonization behavior. Taken together, the results indicate a link between the genome content of V. fischeri strains and their colonization behavior when initiating a light-organ symbiosis.

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Structure and diversity among rhizobial strains, populations and communities?a review

Cited by 68 publications

References 63 publications

Epidemic Spread of Symbiotic and Non-Symbiotic Bradyrhizobium Genotypes Across California

Epidemic Spread of Symbiotic and Non-Symbiotic Bradyrhizobium Genotypes Across California

Rhizobial communities in symbiosis with legumes: genetic diversity, competition and interactions with host plants

A genomic comparison of 13 symbiotic Vibrio fischeri isolates from the perspective of their host source and colonization behavior

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