Agrobacterium arsenijevicii sp. nov., isolated from crown gall tumors on raspberry and cherry plum

Kuzmanović, Nemanja; Puławska, Joanna; Prokić, Anđelka; Ivanović, Milan; Zlatković, Nevena; Jones, Jeffrey B.; Obradović, Aleksa

doi:10.1016/j.syapm.2015.06.001

Cited by 31 publications

(9 citation statements)

References 40 publications

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“…Average nucleotide identity (ANI) analysis of whole genomes has been increasingly used in studies of phylogeny and taxonomy, and values between 95 and 96 % have been considered as equivalent to the 70 % DNA–DNA hybridization (DDH) threshold [53–55], being important for describing new species (e.g. [56, 57]. ANI values for the comparison of all genomes were obtained using ANI calculator [58] and EZBIO [59].…”

Section: Genome Featuresmentioning

confidence: 99%

Genetic diversity of Agrobacterium species isolated from nodules of common bean and soybean in Brazil, Mexico, Ecuador and Mozambique, and description of the new species Agrobacterium fabacearum sp. nov.

Delamuta

Scherer

Ribeiro

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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Agrobacterium strains are associated with soil, plants and animals, and known mainly by their pathogenicity. We studied 14 strains isolated from nodules of healthy soybean and common bean plants in Brazil, Mexico, Ecuador and Mozambique. Sequence analysis of the 16S rRNA gene positioned the strains as Agrobacterium , but with low phylogenetic resolution. Multilocus sequence analysis (MLSA) of three partial housekeeping genes (glnII, gyrB and recA) positioned the strains in four distinct clades, with Agrobacterium pusense , Agrobacterium deltaense, Agrobacterium radiobacter and Agrobacterium sp. genomospecies G1. Analysis by BOX-PCR revealed high intraspecies diversity. Genomic analysis of representative strains of the three clades indicated that they carry the protelomerase telA gene, and MLSA analysis with six complete housekeeping genes (atpD, glnII, gyrB, recA, rpoB and thrC), as well as average nucleotide identity (less than 90 % with closest species) and digital DNA–DNA hybridization (less than 41 % with closest species) revealed that strain CNPSo 675T and Agrobacterium sp. genomospecies G1 compose a new species. Other phenotypic and genotypic characteristics were determined for the new clade. Although not able to re-nodulate the host, we hypothesize that several strains of Agrobacterium are endophytes in legume nodules, where they might contribute to plant growth. Our data support the description of the CNPSo 675T and Agrobacterium sp. genomospecies G1 strains as a new species, for which the name Agrobacterium fabacearum is proposed. The type strain is CNPSo 675T (=UMR 1457T=LMG 31642T) and is also deposited in other culture collections.

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Section: Genome Featuresmentioning

confidence: 99%

Genetic diversity of Agrobacterium species isolated from nodules of common bean and soybean in Brazil, Mexico, Ecuador and Mozambique, and description of the new species Agrobacterium fabacearum sp. nov.

Delamuta

Scherer

Ribeiro

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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“…Recently, the number of agrobacterial species increased because of the transfer of the species Rhizobium nepotum, Rhizobium pusense and Rhizobium skierniewicense to the genus Agrobacterium ([6]; Table 1) and also the description of a novel species, 'Agrobacterium arsenijevicii' [7]. Agrobacterium tumefaciens was found to be a later heterotypic synonym of Agrobacterium radiobacter, suggesting that Ag.…”

Section: Minute 10 Agrobacteriummentioning

confidence: 99%

International Committee on Systematics of Prokaryotes Subcommittee for the Taxonomy of Rhizobium and Agrobacterium Minutes of the meeting, Budapest, 25 August 2016

Lajudie

Young

2017

International Journal of Systematic and Evolutionary Microbiology

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“…Two strains, C3.4.1 and CP17.2.2, together with seven other strains of RFLP groups 22 and 23, were grouped with the type strain of A. nepotum . Strain AL51.1 (RFLP group 31) created a separate phylogenetic lineage constituting a newly described species A. arsenijevicii (Kuzmanović et al ., ).…”

Section: Resultsmentioning

confidence: 97%

“…Additionally, MLSA analysis revealed new phylogenetic lineages of bacteria. Strains G9.8 and C1.6 were related to A. rubi / A. skierniewicense / A. larrymoorei type strains while strain AL51.1 created a separate phylogenetic lineage constituting a newly described species A. arsenijevicii (Kuzmanović et al ., ). The most numerous one is the group of 18 strains allocated in the recently described Pararhizobium genus.…”

Section: Discussionmentioning

confidence: 97%

Identification and characterization of bacteria isolated from crown galls on stone fruits in Poland

2015

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Eighty stone fruit nurseries located in different regions of Poland were examined for the presence of crown gall affected plants. The disease was observed in 39 nurseries, and galls were sampled for bacterial isolation. Out of 1213 isolates, 409 were pre-identified as Agrobacterium/Rhizobium spp. with 23S rDNA-based multiplex PCR, and out of these, 315 were pathogenic when tested on sunflowers. Sequence analysis of three housekeeping genes (fusA, recA, rpoD) revealed that 366 strains belonged to Rhizobium rhizogenes, 23 to Agrobacterium tumefaciens species complex, and the rest of the strains were allocated to new phylogenetic lineages. Of these, the most numerous was the lineage allocated in the Pararhizobium genus. Positive results obtained from pathogenicity tests were generally in agreement with results obtained by PCR with primers complementary to T-DNA except for two strains, which were positive for PCR but negative for the pathogenicity test. All detected Ti plasmids were nopaline-type. Independent of their pathogenicity, 59% of tested strains were not sensitive to agrocin 84 in in vitro tests. Analysis of biochemical and physiological features distinguished 50 groups with different phenotypic profiles, but the tested traits were not consistent for strains classified to one taxon. This finding shows limited value of biochemical tests in identification procedures. The bacteria causing tumours were heterogeneous and strains classified to different taxa were found even in a single tumour.

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Agrobacterium arsenijevicii sp. nov., isolated from crown gall tumors on raspberry and cherry plum

Cited by 31 publications

References 40 publications

Genetic diversity of Agrobacterium species isolated from nodules of common bean and soybean in Brazil, Mexico, Ecuador and Mozambique, and description of the new species Agrobacterium fabacearum sp. nov.

Genetic diversity of Agrobacterium species isolated from nodules of common bean and soybean in Brazil, Mexico, Ecuador and Mozambique, and description of the new species Agrobacterium fabacearum sp. nov.

International Committee on Systematics of Prokaryotes Subcommittee for the Taxonomy of Rhizobium and Agrobacterium Minutes of the meeting, Budapest, 25 August 2016

Identification and characterization of bacteria isolated from crown galls on stone fruits in Poland

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