Polyphasic Taxonomy Of The Genus Frankia

Hahn, Dittmar

doi:10.1007/978-1-4020-3547-0_2

Cited by 15 publications

(11 citation statements)

References 115 publications

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“…S3) markers was to assign each sequence to a cluster within Frankia. The topology of the reconstructed phylogeny among the clusters has been shown to vary depending on the marker used, but members within each cluster are stable (8,17,58).…”

Section: Methodsmentioning

confidence: 99%

“…The Frankia-actinorhizal symbioses are of particular interest in the interpretation of the evolutionary underpinnings of RNS because these symbioses developed, probably independently, within several distinct lineages across the NFC (4). Genetically distinct subgroups within the genus Frankia (cluster I, II, and III) form compatible associations with different lineages of plants within the NFC (6), while cluster IV includes atypical nonsymbiotic and/or non-nitrogen-fixing strains (8). Of these subgroups, cluster II Frankia strains have the broadest host range among nitrogen-fixing plants: species in four different families in two orders (Coriariaceae, Datiscaceae, Rhamnaceae, and Rosaceae) form RNS with cluster II Frankia strains.…”

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confidence: 99%

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The Influence of the Host Plant Is the Major Ecological Determinant of the Presence of Nitrogen-Fixing Root Nodule Symbiont Cluster II Frankia Species in Soil

Battenberg

Wren

Hillman³

et al. 2017

Appl Environ Microbiol

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The actinobacterial genus Frankia establishes nitrogen-fixing root nodule symbioses with specific hosts within the nitrogen-fixing plant clade. Of four genetically distinct subgroups of Frankia, cluster I, II, and III strains are capable of forming effective nitrogen-fixing symbiotic associations, while cluster IV strains generally do not. Cluster II Frankia strains have rarely been detected in soil devoid of host plants, unlike cluster I or III strains, suggesting a stronger association with their host. To investigate the degree of host influence, we characterized the cluster II Frankia strain distribution in rhizosphere soil in three locations in northern California. The presence/absence of cluster II Frankia strains at a given site correlated significantly with the presence/absence of host plants on the site, as determined by glutamine synthetase (glnA) gene sequence analysis, and by microbiome analysis (16S rRNA gene) of a subset of host/nonhost rhizosphere soils. However, the distribution of cluster II Frankia strains was not significantly affected by other potential determinants such as host-plant species, geographical location, climate, soil pH, or soil type. Rhizosphere soil microbiome analysis showed that cluster II Frankia strains occupied only a minute fraction of the microbiome even in the host-plant-present site and further revealed no statistically significant difference in the ␣-diversity or in the microbiome composition between the host-plantpresent or -absent sites. Taken together, these data suggest that host plants provide a factor that is specific for cluster II Frankia strains, not a general growthpromoting factor. Further, the factor accumulates or is transported at the site level, i.e., beyond the host rhizosphere.IMPORTANCE Biological nitrogen fixation is a bacterial process that accounts for a major fraction of net new nitrogen input in terrestrial ecosystems. Transfer of fixed nitrogen to plant biomass is especially efficient via root nodule symbioses, which represent evolutionarily and ecologically specialized mutualistic associations. Frankia spp. (Actinobacteria), especially cluster II Frankia spp., have an extremely broad host range, yet comparatively little is known about the soil ecology of these organisms in relation to the host plants and their rhizosphere microbiomes. This study reveals a strong influence of the host plant on soil distribution of cluster II Frankia spp.

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Section: Methodsmentioning

confidence: 99%

mentioning

confidence: 99%

The Influence of the Host Plant Is the Major Ecological Determinant of the Presence of Nitrogen-Fixing Root Nodule Symbiont Cluster II Frankia Species in Soil

Battenberg

Wren

Hillman³

et al. 2017

Appl Environ Microbiol

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“…While the filamentous hyphae are the primary vegetative state of a growing culture in most actinobacterial genera, the other cell forms represent unique developmental structures that show variability among isolates and growth conditions. For instance, the extent of sporangia formation varies from isolate to isolate, ranging from being totally suppressed for some strains under certain growth conditions to being abundant in others (Hahn 2008). For example, EAN1pec will only sporulate in media containing carbon sources like glucose or sucrose, while EuI1c sporulation is temperature dependent (Tisa et al 1983;Krumholz et al 2003).…”

Section: Phenotypic Diversity Of Frankia Isolatesmentioning

confidence: 99%

Diversity of Frankia Strains, Actinobacterial Symbionts of Actinorhizal Plants

2013

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In the last edition of the Bergey's Manual of Systematic Bacteriology, Frankia was the sole genus found in the family Frankiaceae. This single-genus family, together with Geodermatophilaceae, Nakamurellaceae, Sporichthyaceae, Acidothermaceae, and Cryptosporangiaceae, makes up the order Frankiales, an artificial taxon within the phylum Actinobacteria supported only marginally by 16S rDNA similarities (Normand and Benson 2012). Genus Frankia represents a monophyletic assemblage of soil actinobacteria distinguishable by multilocular sporangia-forming branched hyphae and their unique ability to grow in nitrogen-limited substrates due to their ability to fix nitrogen within specialized thick-walled structures, termed vesicles, produced in vitro and in planta. Diversity of Frankia has been noted in several separate reports on the presence of comparable root nodule structures induced in numerous trees and shrubs growing as aggressive pioneers in nitrogenlimited ecosystems such as glacial moraines, gravel slopes, volcanic ashes, mine spoils, or burned forests with a contributed input of 15 % of total biologically fixed nitrogen on earth (Quispel 1990). Despite the absence of apparent close kinship among these plants, they have been termed actinorhizal plants due to the nature of the root nodule-causing agents detected in plant tissues. Based on in planta morphology and the limited cross-infectivity of crushed-nodule inocula, Becking

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“…A comparative sequence analysis of 16S ribosomal DNA led to the emendation of family Frankiaceae to contain only the genus Frankia with four main subdivisions or clusters . Several genes including glnII, intergenic spacers of 16S-23S rDNA, nifH-D and nifD-K operons have afterwards been successfully used to confirm and describe diversity within these clusters Hahn 2008) as specific targets for characterization of isolates as well as for identification of uncultured endophytes in root nodules. Frankia groups can be described as: Cluster 1: a group of strains comprising Frankia alni and other typical Frankia strains infecting Alnus, Casuarina and Myrica host groups; Cluster 2: unculturable Frankia endophytes from nodules of Dryas, Coriaria and Datisca including also Ceanothus; Cluster 3: strains of Elaeagnaceae and most Rhamnaceae excluding Ceanothus strains; Cluster 4: atypical non-N 2 -fixing strains or strains that are not able to reinfect the original host but have been isolated from actinorhizal nodules.…”

Section: Introductionmentioning

confidence: 99%

“…Due to the complexity and diversity of Frankia, polyphasic taxonomy approaches seem to be more appropriate, integrating information retrieved by a wide range of techniques on different levels of taxonomic resolution (Hahn 2008). Currently only clusters or groups of Frankia are being considered based on phylogenetic analysis of strain gene sequences (Benson and Dawson 2007;Normand et al 1996).…”

Section: Introductionmentioning

confidence: 99%

Life in soil by the actinorhizal root nodule endophyte Frankia. A review

2010

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Frankia is a genus of soil actinomycetes famous for its ability to form N 2 -fixing root nodule symbioses with actinorhizal plants. Although Frankia strains display a high diversity in terms of ecological niches in soil, current knowledge about Frankia is dominated by its life as an endophyte in root nodules. Increased use of molecular methods has refined and expanded insights into endophytehost specificities and Frankia phylogeny. This review has focus on Frankia as a soil organism, including its part of microbial consortia, and how to study Frankia in soil. We highlight the use of nodulation tests and molecular methods to reveal population size and genetic diversity of Frankia in soil and discuss how autoregulation of nodulation and interactions with other soil microorganisms may influence the results. A comprehensive record of published interactions between Frankia and other soil microbes is summarized. Life in soil by the actinorhizal root nodule endophyte Frankia 203 204 E.E. Chaia et al. E.E. Chaia et al.

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Polyphasic Taxonomy Of The Genus Frankia

Cited by 15 publications

References 115 publications

The Influence of the Host Plant Is the Major Ecological Determinant of the Presence of Nitrogen-Fixing Root Nodule Symbiont Cluster II Frankia Species in Soil

The Influence of the Host Plant Is the Major Ecological Determinant of the Presence of Nitrogen-Fixing Root Nodule Symbiont Cluster II Frankia Species in Soil

Diversity of Frankia Strains, Actinobacterial Symbionts of Actinorhizal Plants

Life in soil by the actinorhizal root nodule endophyte Frankia. A review

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