Yersinia artesiana sp. nov., Yersinia proxima sp. nov., Yersinia alsatica sp. nov., Yersina vastinensis sp. nov., Yersinia thracica sp. nov. and Yersinia occitanica sp. nov., isolated from humans and animals

Abstract

Thirty-three Yersinia strains previously characterized by the French Yersinia National Reference Laboratory (YNRL) and isolated from humans and animals were suspected to belong to six novel species by a recently described core genome multilocus sequence typing scheme. These strains and five additional strains from the YNRL were characterized using a polyphasic taxonomic approach including a phylogenetic analysis based on 500 core genes, determination of average nucleotide identity (ANI), determination of DNA G+C content and identification of phenotypic features. Phylogenetic analysis confirmed that the 38 studied strains formed six well-demarcated clades. ANI values between these clades and their closest relatives were <94.7 % and ANI values within each putative novel species were >97.5 %. Distinctive biochemical characteristics were identified in five out of the six novel species. All of these data demonstrated that the 38 strains belong to six novel species of the genus Yersinia : Yersinia artesiana sp. nov., type strain IP42281T (=CIP 111845T=DSM 110725T); Yersinia proxima sp. nov., type strain IP37424T (=CIP 111847T=DSM 110727T); Yersinia alsatica sp. nov., type strain IP38850T (=CIP 111848T=DSM 110726T); Yersinia vastinensis sp. nov., type strain IP38594T (=CIP 111844T=DSM 110738T); Yersinia thracica sp. nov., type strain IP34646T (=CIP 111842T=DSM 110736T); and Yersinia occitanica sp. nov., type strain IP35638T (=CIP 111843T=DSM 110739T).

Yersinia occitanica is a later heterotypic synonym of Yersinia kristensenii subsp. rochesterensis and elevation of Yersinia kristensenii subsp. rochesterensis to species status

“…The O:12 serotypes formed a distinct cluster and the O:12 serotypes for Y. occitanica reported by Le Guern et al [4] offer additional support for this distinction.…”

“…A maximum-likelihood phylogenetic tree based on 500 concatenated translated core genes aligned by Le Guern et al [4] shows an extremely similar topology to a Yersinia core genome alignment-based tree that was generated by Parsnp [3]. Thus Y.…”

“…The taxonomy of the Yersinia genus has experienced a recent expansion with the description of several new species within the past two years [1–4]. Three Yersinia species are important human zoonotic pathogens with Yersinia pestis responsible for some of the most impactful pandemics in recorded human history [5].…”

Obtaining Specific Sequence Tags for Yersinia pestis and Visually Detecting Them Using the CRISPR-Cas12a System

“…The Yersinia genus is an Enterobacteriaceae family member. The genus currently includes three prominent human and animal pathogens: Y. pestis , Y. enterocolitica , and Y. pseudotuberculosis [ 35 ]. Of these, Y. pestis causes the fatal infectious disease called plague.…”

Phylogenetic Relatedness and Genome Structure of Yersinia ruckeri Revealed by Whole Genome Sequencing and a Comparative Analysis

“…In order to explore the genetic relationship of the Y. ruckeri strains with the genus Yersinia, we additionally downloaded the genome sequence data of 90 strains representing the 26 currently validated Yersinia species (Savin et al, 2019;Le Guern et al, 2020;Nguyen et al, 2021). Reference genomes in the RefSeq database and the genomes of the species type strains were prioritized during data retrieval from NCBI.…”