Rhizobium ruizarguesonis sp. nov., isolated from nodules of Pisum sativum L

Jorrín, Beatriz; Palacios, José Luis Calvo; Peix, Álvaro; Imperial, Juan

doi:10.1016/j.syapm.2020.126090

Cited by 31 publications

(15 citation statements)

References 39 publications

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“…Two much smaller clades are also readily equated with named species: gsG is R. sophorae [91] and gsI is "R. indicum" [59] (not yet a validated name). Another recent name is R. ruizarguesonis [58], described on the basis of four closely-related strains, but clearly embedded within the large and diverse gsC, which we have concluded is best considered a single genospecies. Hence, gsC is R. ruizarguesonis, although the species description may need to be revisited to encompass this much greater diversity.…”

Section: The Genospecies Could Be the Basis For New Formal Taxonomic Namesmentioning

confidence: 86%

Defining the Rhizobium Leguminosarum Species Complex

Young¹,

Moeskjær²,

Afonin³

et al. 2020

Preprint

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Bacteria currently included in Rhizobium leguminosarum are too diverse to be considered a single species, so we can refer to this as a species complex (the Rlc). We have found 429 publicly available genome sequences that fall within the Rlc and these show that the Rlc is a distinct entity, well separated from other species in the genus. Its sister taxon is R. anhuiense. We constructed a phylogeny based on concatenated sequences of 120 universal (core) genes, and calculated pairwise average nucleotide identity (ANI) between all genomes. From these analyses, we concluded that the Rlc includes 18 distinct genospecies, plus 7 unique strains that are not placed in these genospecies. Each genospecies is separated by a distinct gap in ANI values, usually at around 96% ANI, implying that it is a 'natural' unit. Five of the genospecies include the type strains of named species: R. laguerreae, R. sophorae, R. ruizarguesonis, "R. indicum" and R. leguminosarum itself. The 16S ribosomal RNA sequence is remarkably diverse within the Rlc, but does not distinguish the genospecies. Partial sequences of housekeeping genes, which have frequently been used to characterise isolate collections, can mostly be assigned unambiguously to a genospecies, but alleles within a genospecies do not always form a clade, so single genes are not a reliable guide to the true phylogeny of the strains. We conclude that access to a large number of genome sequences is a powerful tool for characterising the diversity of bacteria, and that taxonomic conclusions should be based on all available genome sequences, not just those of type strains.

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Section: The Genospecies Could Be the Basis For New Formal Taxonomic Namesmentioning

confidence: 86%

Defining the Rhizobium Leguminosarum Species Complex

Young¹,

Moeskjær²,

Afonin³

et al. 2020

Preprint

Self Cite

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Section: Minute 7 Recent Relevant Publications In Genome-based Taxonomymentioning

confidence: 99%

“…7.5. Rhizobium ruizarguesonis [ 17, 18 ] is within genospecies C of the R. leguminosarum species complex, so this is now the formal name for genospecies C. There are now five named species within the R. leguminosarum species complex ( R. leguminosarum , R. laguerreae , R. sophorae , R. ruizarguesonis and 'R. indicum') and a recent study indicates that there are more that could be named in future [ 19 ].…”

Section: Minute 7 Recent Relevant Publications In Genome-based Taxonomymentioning

confidence: 99%

International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Rhizobia and Agrobacteria Minutes of the closed meeting by videoconference, 6 July 2020

Lajudie

Mousavi

Young

2021

International Journal of Systematic and Evolutionary Microbiology

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“…In particular, a highly specific relationship has been developed between legumes from the tribe Fabeae and Rhizobium leguminosarum symbiovar viciae [5]. In addition, Rhizobium anhuiense , Rhizobium bangladeshense , Rhizobium binae , Rhizobium fabae , Rhizobium laguerreae , Rhizobium lentis , Rhizobium multihospitium , Rhizobium pisi , Rhizobium indicum and Rhizobium ruizarguesonis have been reported to form effective (N 2 -fixing) nodules on a range of Fabeae species [4, 6–8]. However, the nifH and nodC sequences for all these Rhizobium species showed high similarity to those of R.…”

Section: Isolation and Ecologymentioning

confidence: 99%

Rhizobium changzhiense sp. nov., isolated from effective nodules of Vicia sativa L. in North China

Zhang

Peng

Andrews

et al. 2019

International Journal of Systematic and Evolutionary Microbiology

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Three fast-growing rhizobial strains isolated from effective nodules of common vetch (Vicia sativa L.) were characterized using a polyphasic approach. All three strains were assigned to the genus Rhizobium on the basis of the results of 16S rRNA gene sequence analysis. Phylogenetic analysis based on concatenated atpD-recA genes separated the strains into a distinct lineage represented by WYCCWR 11279T, which showed average nucleotide identity values of 95.40 and 93.61 % with the most similar phylogenetic type strains of Rhizobium sophorae CCBAU 03386T and Rhizobium laguerreae FB TT, respectively. The digital DNA–DNA hybridization relatedness values between WYCCWR 11279T and the closest related type strains were less than 70 %. Therefore, a novel rhizobial species is proposed, Rhizobium changzhiense sp. nov., and strain WYCCWR 11279T (=HAMBI 3709T=LMG 31534T) is designated as the type strain for the novel species.

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Rhizobium ruizarguesonis sp. nov., isolated from nodules of Pisum sativum L

Cited by 31 publications

References 39 publications

Defining the Rhizobium Leguminosarum Species Complex

Defining the Rhizobium Leguminosarum Species Complex

International Committee on Systematics of Prokaryotes Subcommittee on the Taxonomy of Rhizobia and Agrobacteria Minutes of the closed meeting by videoconference, 6 July 2020

Rhizobium changzhiense sp. nov., isolated from effective nodules of Vicia sativa L. in North China

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