Pectobacterium parvum sp. nov., having a Salmonella SPI-1-like Type III secretion system and low virulence
Miia Pasanen , Małgorzata Waleron , Thomas Schott , Ilse Cleenwerck , Agnieszka Misztak , Krzysztof Waleron , Leighton Pritchard , Ramadan Bakr , Yeshitila Degefu , Jan van der Wolf , Peter Vandamme , Minna Pirhonen
AbstractPectobacterium 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 clade 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 s0421T (CFBP 8630T=LMG 30828T) is suggested as a type strain.
|Journal series||International Journal of Systematic and Evolutionary Microbiology, ISSN 1466-5026, e-ISSN 1466-5034, (N/A 70 pkt)|
|Publication size in sheets||0.50|
|Keywords in English||Pectobacterium, Pectobacterium parvum, Salmonella SPI-1 T3SS, potato, soft rot, virulence|
|ASJC Classification||; ;|
|License||Other; published final; ; with publication|
|Score||= 70.0, 11-03-2020, ArticleFromJournal|
|Publication indicators||: 2018 = 1.028; : 2018 = 2.166 (2) - 2018=2.212 (5)|
* presented citation count is obtained through Internet information analysis and it is close to the number calculated by the Publish or Perish system.