Transfer of the waterfall source isolate Pectobacterium carotovorum M022 to Pectobacterium fontis sp. nov., a deep-branching species within the genus Pectobacterium

Int J Syst Evol Microbiol. 2019 Feb;69(2):470-475. doi: 10.1099/ijsem.0.003180. Epub 2019 Jan 2.

Abstract

Pectobacterium carotovorum M022T has been isolated from a waterfall source in Selangor district (Malaysia). Using genomic and phenotypic tests, we re-examined the taxonomical position of this strain. Based on 14 concatenated housekeeping genes (fusA, rpoD, rpoS, acnA, purA, gyrB, recA, mdh, mtlD, groEL, secY, glyA, gapA and rplB), multi-locus sequence analysis revealed that strain M022T falls into a novel clade separated from the other Pectobacterium species. The in silico DNA-DNA hybridization and average nucleotide identity values were lower than the 70 and 95 % threshold values, respectively. In addition, by combining genomic and phenotypic tests, strain M022T may be distinguished from the other Pectobacterium isolates by its incapacity to grow on d(+)-xylose, l-rhamnose, cellobiose and lactose. Strain M022T (=CFBP 8629T=LMG 30744T) is proposed as the type strain of the Pectobacteriumfontis sp. nov.

Keywords: Dickeya; Pectobacterium; pectinolytic; water; waterfall.

MeSH terms

  • Bacterial Typing Techniques
  • DNA, Bacterial / genetics
  • Genes, Bacterial
  • Malaysia
  • Nucleic Acid Hybridization
  • Pectobacterium / classification*
  • Pectobacterium carotovorum / classification
  • Phylogeny*
  • Sequence Analysis, DNA
  • Water Microbiology*

Substances

  • DNA, Bacterial