10.3389/fmicb.2018.01106.s004
Vladimir V. Kutyrev
Vladimir V.
Kutyrev
Galina A. Eroshenko
Galina A.
Eroshenko
Vladimir L. Motin
Vladimir
L. Motin
Nikita Y. Nosov
Nikita Y.
Nosov
Jaroslav M. Krasnov
Jaroslav M.
Krasnov
Lyubov M. Kukleva
Lyubov M.
Kukleva
Konstantin A. Nikiforov
Konstantin A.
Nikiforov
Zhanna V. Al’khova
Zhanna V.
Al’khova
Eugene G. Oglodin
Eugene G.
Oglodin
Natalia P. Guseva
Natalia P.
Guseva
Table_4_Phylogeny and Classification of Yersinia pestis Through the Lens of Strains From the Plague Foci of Commonwealth of Independent States.XLSX
Frontiers
2018
plague agent
phylogenetic diversity
subspecies classification
PCR and SNP typing
whole genome sequencing
2018-05-25 04:16:17
Dataset
https://frontiersin.figshare.com/articles/dataset/Table_4_Phylogeny_and_Classification_of_Yersinia_pestis_Through_the_Lens_of_Strains_From_the_Plague_Foci_of_Commonwealth_of_Independent_States_XLSX/6350606
<p>The established phylogeny of the etiological agent of plague, Yersinia pestis, is not perfect, as it does not take into account the strains from numerous natural foci of Commonwealth of Independent States (CIS). We have carried out PCR and SNP typing of 359 strains and whole genome sequencing of 51 strains from these plague foci and determined the phylogenetic diversity of the strains circulating here. They belong to 0.ANT3, 0.ANT5, 2.ANT3, 4.ANT branches of antique biovar, 2.MED0, 2.MED1 branches of medieval biovar and to 0.PE2, 0.PE4a. 0.PE4h, 0.PE4t branches. Based on the studies of 178 strains from 23 plague foci of CIS countries, it was determined that the population structure of 2.MED strains is subdivided into Caucasian–Caspian and Central Asian–Chinese branches. In Central-Caucasian high-mountain plague foci in the Russian Federation (RF) the most deeply diverged branch of medieval biovar, 2.MED0, has been found. With the data obtained, the current population structure of Y. pestis species has been refined. New subspecies classification is developed, comprising seven subspecies: pestis, caucasica (0.PE2), angolica (0.PE3), central asiatica (0.PE4), tibetica (0.PE7), ulegeica (0.PE5), and qinghaica (0.PE10).</p>