Fig 2 - uploaded by Luc Rouws
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16S rRNA-recA Cupriavidus. Phylogenetic tree showing Cupriavidus clades R and S. The tree was constructed as described in the legend of Fig. 1, but in this case, the genus Paraburkholderia was collapsed to facilitate visualization of phylogenetic relationships within Cupriavidus. Black squares indicate strains from the present study with complete genome sequences. Abbreviations: S. Africa = South Africa, Fr. Guiana = French Guiana, N. Caledonia = New Caledonia, Pipt. gonoacantha = Piptadenia gonoacantha, Mach. Lunatum = Machaerium lunatum, H. sophoroides = Hypocalyptus sophoroides, L. ambigua = Lebeckia ambigua. Details in Table S1.
Source publication
Neotropical Beta-rhizobia have a particular affinity to the large legume (Fabaceae) genus Mimosa and some of its relatives in the tribe Mimosae of the Caesalpinioideae subfamily. However, little is still known about the ecology of this interaction, especially the relationship between the rhizobia of "widespread" pan-tropical Mimosa species like M....
Contexts in source publication
Context 1
... recA sequences of 100 of the BR isolates were also obtained (Fig. S2); these were combined with those of the JPY, EG and JHI strains (Table S1) to construct a 16S rRNA-recA phylogeny (Fig. 1), which allows for greater resolution in terms of which Beta-rhizobial species the BR, EG, JHI and JPY isolates belong to. Although many of the JPY strains from the study of Bontemps et al. (2010) have already been ...
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... strains and determine the identities of the new BR, EG and JHI strains vis-` a-vis current revisions in the taxonomy of Betarhizobia. A concatenated 16S rRNA-recA phylogeny reveals that the combined BR-EG-JHI-JPY isolates belong to 21 genotypes of rhizobia comprising 17 Paraburkholderia (Fig. 1, Table S1), two Cupriavidus genotypes (Fig. 2, Table S1), a single genotype of Rhizobium, and a single strain of ...
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... of the 14 Cupriavidus strains isolated in this study (prefixed BR) were from nodules on the widespread species M. pudica and M. tenuiflora sampled in CE, ES, MG, RJ and RR, and all but one was placed in Group S with C. taiwanensis in the 16S rRNA-recA phylogeny (Fig. 2). The exception was BR13378 from M. pudica in RJ, which was placed in Group R together with UYPR2.512 from Parapiptadenia rigida nodules in Uruguay ( Taulé et al., 2012;De Meyer et al., 2015a); the type strain of C. lacunae was closest to this pair of strains. Other divergent strains were UYMMa02A from M. magentea in Uruguay ( Platero ...
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... from nodules of common bean (Phaseolus vulgaris) and Leucaena leucocephala grown in soil sampled from a pasture in MG, Brazil (da Silva et al., 2012). It was a substantial incongruency given that all the BR strains (except for the C. lacunae-like BR13378) were placed in C. taiwanensis according to the 16S rRNA-recA phylogeny, including BR13474 (Fig. 2) that was isolated from M. pudica growing in the same field from which the soil that was used to trap UFLA02-71 was sampled (James and de Faria, unpublished). Strain UYMMa02A from M. magentea in Uruguay and the C. lacunae-like BR13378 were also clustered in this nodC/nifH group, but UYPR2.512 from P. rigida (Taulé et al., 2012;De Meyer ...
Citations
... Recently, a study about neotropical beta-rhizobia was performed on Mimosa species in Brazil [14]. In Rouws et al. 's research, several Cupriavidus strains were isolated and clustered in two lineages: one belonging to C. taiwanensis and a second that might belong to a novel species. ...
Several Cupriavidus and Burkholderia strains from the north of Mexico were isolated during the description of Cupriavidus strains. Cupriavidus alkaliphilus, Cupriavidus plantarum and Cupriavidus agave were later described as novel species. Next, the Genomic Encyclopedia of Bacteria and Archaea project retrieved the genome sequences of several strains from the above species. Standard comparative genomic analysis showed that C. alkaliphilus MLR2-44 was taxonomically misclassified. This strain, isolated from the Zea mays rhizosphere, was analysed by average nucleotide identity (ANI), revealing that Cupriavidus nantongensis was the closest species (95.6%). However, the digital DNA–DNA hybridization (dDDH) resulted in values lower than 68% for any type strain of Cupriavidus species. Moreover, it was also found that Cupriavidus taiwanensis LMG 19430, isolated from Mimosa diplotricha root nodules, was closer to strain MLR2-44T (99.9% ANI and 99.8% dDDH), instead of being associated with the type strain of C. taiwanensis LMG 19424T (94.4% ANI and 54.6% dDDH), thus making strains MLR2-44T and LMG 19430 a single genomic species. Accordingly, the polyphasic analysis showed that these strains represent a new species; therefore, we propose that strains MLR2-44T (=CDBB B-2066T=TSD-312T) and LMG 19430 encompass a novel Cupriavidus species with the name of Cupriavidus phytorum sp. nov.
