Pectobacterium parvum sp. nov., having a Salmonella SPI-1-like Type III secretion system and low virulence

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Pasanen , M , Waleron , M , Schott , T , Cleenwerck , I , Misztak , A , Waleron , K , Pritchard , L , Bakr , R , Degefu , Y , van der Wolf , J , Vandamme , P & Pirhonen , M 2020 , ' Pectobacterium parvum sp. nov., having a Salmonella SPI-1-like Type III secretion system and low virulence ' , International Journal of Systematic and Evolutionary Microbiology , vol. 70 , no. 4 , pp. 2440-2448 . https://doi.org/10.1099/ijsem.0.004057 , https://doi.org/10.1099/ijsem.0.004111

Title: Pectobacterium parvum sp. nov., having a Salmonella SPI-1-like Type III secretion system and low virulence
Author: Pasanen, Miia; Waleron, Malgorzata; Schott, Thomas; Cleenwerck, Ilse; Misztak, Agnieszka; Waleron, Krzysztof; Pritchard, Leighton; Bakr, Ramadan; Degefu, Yeshitila; van der Wolf, Jan; Vandamme, Peter; Pirhonen, Minna
Contributor: University of Helsinki, Faculty of Agriculture and Forestry
University of Helsinki, Department of Agricultural Sciences
University of Helsinki, Department of Agricultural Sciences
Date: 2020
Language: eng
Number of pages: 9
Belongs to series: International Journal of Systematic and Evolutionary Microbiology
ISSN: 1466-5026
URI: http://hdl.handle.net/10138/323329
Abstract: Pectobacterium strains isolated from potato stems in Finland, Poland and the Netherlands were subjected to polyphasic analyses to characterize their genomic and phenotypic features. Phylogenetic analysis based on 382 core proteins showed that the isolates clustered closest to Pectobacterium polaris but could be divided into two clades. Average nucleotide identity (ANI) analysis revealed that the isolates in one of the clades included the P. polaris type strain, whereas the second Glade was at the border of the species P. polaris with a 96 % ANI value. In silico genome-to-genome comparisons between the isolates revealed values below 70%, patristic distances based on 1294 core proteins were at the level observed between closely related Pectobacterium species, and the two groups of bacteria differed in genome size, G+C content and results of amplified fragment length polymorphism and Biolog analyses. Comparisons between the genomes revealed that the isolates of the atypical group contained SPI-1-type Type III secretion island and genes coding for proteins known for toxic effects on nematodes or insects, and lacked many genes coding for previously characterized virulence determinants affecting rotting of plant tissue by soft rot bacteria. Furthermore, the atypical isolates could be differentiated from P. polaris by their low virulence, production of antibacterial metabolites and a citrate-negative phenotype. Based on the results of a polyphasic approach including genome-to-genome comparisons, biochemical and virulence assays, presented in this report, we propose delineation of the atypical isolates as a novel species Pectobacterium parvum, for which the isolate s0421(T) (CFBP 8630(T)=LMG 30828(T)) is suggested as a type strain.
Subject: Pectobacterium
Pectobacterium parvum
Salmonella SPI-1 T3SS
potato
soft rot
virulence
DNA-DNA HYBRIDIZATION
POTATO
IDENTIFICATION
CAROTOVORA
WASABIAE
SEQUENCE
HOST
GENE
RESISTANCE
NEMATODES
11832 Microbiology and virology
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