Rhizobium pusense sp. nov., isolated from the rhizosphere of chickpea (Cicer arietinum L.)

Panday, Digvijay; Schümann, Peter; Das, Subrata K.

doi:10.1099/ijs.0.028407-0

Cited by 91 publications

(57 citation statements)

References 37 publications

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“…R. radiobacter species complex is known to be very diverse and includes at least 11 genomovars, R. nepotum and R. pusense (Portier et al, 2006;Costechareyre et al, 2010;Pulawska et al, 2012;Panday et al, 2011). In this study, strains belonging to genomovars G1, G4, G7, G8, G9, R. nepotum and R. pusense were used; results were compiled into "R. radiobacter species complex" in this table.…”

Section: Rhizobium Species and Their Relatives Including Root Nodule mentioning

confidence: 99%

Simultaneous plasmid profiling of phytopathogenic Rhizobium species (former Agrobacterium species) using multiplex colony-direct PCR.

宏之

浩一

章

2016

Jpn. J. Phytopathol.

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(2016). Simultaneous plasmid profiling of phytopathogenic Rhizobium species (former Agrobacterium species) using multiplex colony-direct PCR. Jpn. J. Among Rhizobium species, six species include plant pathogens as a member: R. radiobacter species complex (including R. nepotum and R. pusense), R. rhizogenes, R. vitis, R. rubi, R. larrymoorei, and R. skierniewicense. Based on their pathogenic states, the members belonging to the six species can be divided into three types, namely, crown gall bacteria carrying Ti plasmid, hairy root bacteria carrying Ri plasmid, and nonpathogenic bacteria carrying neither pathogenic plasmids. In this study, we developed a plasmid-profiling method using a multiplex colony-direct PCR to identify any pathogenic plasmid present in the respective strains and thus determine their pathogenic state. For that purpose, a universal primer set for both pathogenic plasmids and a specific primer set for the Ri plasmid were designed based on the sequences of virC1 and rolC, respectively. The universal primer set for 16S rRNA gene (16S rDNA), chosen as an internal control, was also added to the PCR mix to readily judge the success of the reaction and exclude false-negative reactions. Reliability of the method as a plasmid-profiling tool was then validated using the Rhizobium species containing plant pathogens and their relatives of 383 strains in total. As a result, two DNA fragments, one from virC1-specific amplification (278 bp) and the other (780-784 bp) from 16S rDNA as the internal control, were stably obtained from all crown gall bacteria used. For hairy root bacteria, three fragments derived from virC1 (278 bp), rolC (438 bp) and 16S rDNA were always observed. On the other hand, only a fragment derived from 16S rDNA was amplified from the other nonpathogenic bacteria. Therefore, this method is useful for rapid plasmid profiling of the Rhizobium species containing plant pathogens, which will improve the efficiency in areas such as surveillance and diagnosis of crown gall and hairy root diseases and epidemiological and ecological studies of the pathogens.

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Section: Rhizobium Species and Their Relatives Including Root Nodule mentioning

confidence: 99%

Simultaneous plasmid profiling of phytopathogenic Rhizobium species (former Agrobacterium species) using multiplex colony-direct PCR.

宏之

浩一

章

2016

Jpn. J. Phytopathol.

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“…R. radiobacter species complex is known to be very diverse and includes at least 11 genomovars, R. nepotum and R. pusense (Portier et al, 2006;Costechareyre et al, 2010;Puławska et al, 2012;Panday et al, 2011). In this study, strains belonging to genomovars G1, G4, G7, G8, G9, R. nepotum and R. pusense were used; results were compiled into "R. radiobacter species complex" in this table.…”

mentioning

confidence: 99%

Simultaneous identification of phytopathogenic Rhizobium species (former Agrobacterium species) using multiplex colony-direct PCR.

Sawada

2015

Jpn. J. Phytopathol.

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SAWADA, H.1 * (2015). Simultaneous identification of phytopathogenic Rhizobium species (former Agrobacterium species) using multiplex colony-direct PCR. Jpn. J. Phytopathol. 81: 332-340.The genus Rhizobium includes two plant pathogens, crown gall and hairy root bacteria. Among the existing species of the genus, the following six species have at least either of these two pathogens as a member: R. radiobacter species complex (including R. nepotum and R. pusense), R. rhizogenes, R. vitis, R. rubi, R. larrymoorei, and R. skierniewicense. Of these six species, four species (R. radiobacter species complex, R. rhizogenes, R. vitis, and R. rubi) were the focus of this study to develop a method for their simultaneous identification by means of a multiplex colony-direct PCR. Respective species-specific primer sets were designed based on sequences of the recA or pyrG genes. The universal primer set for 16S rRNA gene (16S rDNA), chosen as an internal control, was also added to the PCR mix to readily judge the success of the reaction and exclude false-negative reactions. Reliability of the method as an identification tool was then validated using the Rhizobium species containing pathogens and their relatives of 383 strains in total. As a result, two DNA fragments, one from species-specific amplifications (R. radiobacter species complex [245 bp], R. vitis [319 bp], R. rubi [420 bp], or R. rhizogenes [503 bp]) and the other (780-784 bp) from 16S rDNA as the internal control, were stably obtained from all the strains belonging to the targeted four species. When the other strains were used, only the fragment derived from 16S rDNA was amplified. Therefore, this method is useful for the rapid identification of the four Rhizobium species (R. radiobacter species complex, R. rhizogenes, R. vitis, and R. rubi), which will improve the efficiency in areas such as surveillance and diagnosis of crown gall and hairy root diseases and epidemiological and ecological studies.

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“…For the ICSP subcommittee on the taxonomy of Rhizobium and Agrobacterium, this seems to be a good interim solution until genomovars can be formally named (Lindström & Young, 2011). In addition to the epithet radiobacter for genomovar G4, fabrum and pusense have recently been proposed for homogenous species corresponding to genomovar G8 and to genomovar G2, respectively (Lassalle et al, 2011;Panday et al, 2011). Modifications of the nomenclature also happen at the genus level.…”

Section: Introductionmentioning

confidence: 99%

Rapid and Efficient Methods to Isolate, Type Strains and Determine Species of Agrobacterium spp. in Pure Culture and Complex Environments

Shams¹,

Campillo²,

Lavire³

et al. 2012

Biochemical Testing

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Rhizobium pusense sp. nov., isolated from the rhizosphere of chickpea (Cicer arietinum L.)

Cited by 91 publications

References 37 publications

Simultaneous plasmid profiling of phytopathogenic <i>Rhizobium</i> species (former <i>Agrobacterium </i>species) using multiplex colony-direct PCR.

Simultaneous plasmid profiling of phytopathogenic <i>Rhizobium</i> species (former <i>Agrobacterium </i>species) using multiplex colony-direct PCR.

Simultaneous identification of phytopathogenic <i>Rhizobium</i> species (former <i>Agrobacterium</i> species) using multiplex colony-direct PCR.

Rapid and Efficient Methods to Isolate, Type Strains and Determine Species of Agrobacterium spp. in Pure Culture and Complex Environments

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