Analysis of diversity and identification of the genovariants of plague agent strains from Mongolian foci

Куклева, Л. М.; Shavina, N. Yu.; Odinokov, G. N.; Оглодин, Е. Г.; Nosov, N. Yu.; Виноградова, Н. А.; Guseva, Natalya V.; Eroshenko, G. A.; Кутырев, Владимир

doi:10.1134/s1022795415010068

Cited by 13 publications

(8 citation statements)

References 5 publications

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“…Y. pestis genotypic data were edited from the literature (7–9, 37–39). Y. pestis strains can be classified into three main genovariants: 1.ORI, 2.MED, and ANT (9).…”

Section: Methodsmentioning

confidence: 99%

Historical and genomic data reveal the influencing factors on global transmission velocity of plague during the Third Pandemic

Stige

Leirs

et al. 2019

Proc. Natl. Acad. Sci. U.S.A.

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Quantitative knowledge about which natural and anthropogenic factors influence the global spread of plague remains sparse. We estimated the worldwide spreading velocity of plague during the Third Pandemic, using more than 200 years of extensive human plague case records and genomic data, and analyzed the association of spatiotemporal environmental factors with spreading velocity. Here, we show that two lineages, 2.MED and 1.ORI3, spread significantly faster than others, possibly reflecting differences among strains in transmission mechanisms and virulence. Plague spread fastest in regions with low population density and high proportion of pasture- or forestland, findings that should be taken into account for effective plague monitoring and control. Temperature exhibited a nonlinear, U-shaped association with spread speed, with a minimum around 20 °C, while precipitation showed a positive association. Our results suggest that global warming may accelerate plague spread in warm, tropical regions and that the projected increased precipitation in the Northern Hemisphere may increase plague spread in relevant regions.

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“…Y. pestis genotypic data were edited from the literature (7–9, 37–39). Y. pestis strains can be classified into three main genovariants: 1.ORI, 2.MED, and ANT (9).…”

Section: Methodsmentioning

confidence: 99%

Historical and genomic data reveal the influencing factors on global transmission velocity of plague during the Third Pandemic

Stige

Leirs

et al. 2019

Proc. Natl. Acad. Sci. U.S.A.

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“…Whole-genome sequencing of Y. pestis KM682 has confirmed that the strains from this focus belong to 2.ANT3 branch. Similar strains circulate in the bordering Khenteisky aimak in Mongolia, as well as in border-line territories of China ( Kukleva et al, 2015 ).…”

Section: Resultsmentioning

confidence: 97%

Phylogeny and Classification of Yersinia pestis Through the Lens of Strains From the Plague Foci of Commonwealth of Independent States

et al. 2018

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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).

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“…на территории баян-улэгейского аймака монгольской народной республики циркуляция штаммов основного подвида чумного микроба из-вестна с 1988 г. в частности, здесь выявлен штамм Y. pestis и-3244, который, на основании наличия в локусе YPO1418 маркерной замены единично-го нуклеотида G → A, отнесен к линии 4.ANT [7]. ранее в схеме мирового генетического разнообразия был представлен только один штамм геноварианта 4.ANT, который выделили на территории монголии [22].…”

Section: материалы и методыunclassified

“…число выде-ленных штаммов Y. pestis ssp. altaica составило: от се-рого сурка и снятых с него блох вида Oropsylla silantievi -7 (0,3 %); от длиннохвостого суслика и его экто-паразитов -75 (3,1); от даурской пищух -171 (7,1), от плоскочерепной полевки -97 (4,0). зараженные жи-вотные выявлены на территории 43 эпизоотических участков, которые характеризуются стойким характе-ром эпизоотических проявлений.…”

Section: материалы и методыunclassified

Natural Mega-Focus of Yersinia pestis Main Subspecies, Antique Biovar, Phylogenetic Line 4.ANT in Gorny Altai

Eroshenko¹,

Попов²,

Краснов³

et al. 2018

Problemy Osobo Opasnykh Infektsii

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Objective of this study was to investigate the areal of Yersinia pestis strains of antique biovar, main subspecies, phylogenetic line 4.ANT, as well as to establish the borders and spatial structure of mega-focus in the territory of Gorny Altai. Materials and methods. Complex comprehensive analysis of the properties in Yersinia pestis strains of the main subspecies, circulating in Gorny Altai has been conducted. 33 out of them, isolated predominantly in 2012-2017 have been sequenced. Whole genome SNP analysis and search of marker SNPs was performed using Wombac 2.0 software package. Tree diagram was built applying Maximum Likelihood algorithm, using PhyML 3.1 software on the basis of HKY85 model. Results and conclusions. Based on the results of whole genome SNPs analysis of 33 endemic strains and creation of the tree diagram of Y. pestis strains, the presence of natural mega-focus of Y. pestis belonging to the main subspecies, antique biovar, phylogenetic line 4.ANT has been substantiated. Epizootic manifestations on multiple local areas, characterized by persistent autonomous nature of plague manifestations, are registered on an annual basis. Within the boundaries of the areal of Yersinia pestis main subspecies, antique biovar, phylogenetic line 4.ANT, existence of joint natural foci of Yersinia pestis belonging to non-main subspecies ssp. altaica and ulegeica is established. Location of natural foci of the main and non-main subspecies of Yersinia pestis in different altitudinal belts of the Altai Mountains Range on the whole provides for observed multi-host and multi-vector feature of epizootic manifestations. For the first time ever, the data on the areal of the main subspecies of plague microbe are used for setting the boundaries of its natural focus.Key words: Gorny Altai, mega-focus of the main subspecies of Yersinia pestis, joint natural foci of the main and nonmain subspecies of Yersinia pestis, multi-host and multi-vector nature.

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Analysis of diversity and identification of the genovariants of plague agent strains from Mongolian foci

Cited by 13 publications

References 5 publications

Historical and genomic data reveal the influencing factors on global transmission velocity of plague during the Third Pandemic

Historical and genomic data reveal the influencing factors on global transmission velocity of plague during the Third Pandemic

Phylogeny and Classification of Yersinia pestis Through the Lens of Strains From the Plague Foci of Commonwealth of Independent States

Natural Mega-Focus of Yersinia pestis Main Subspecies, Antique Biovar, Phylogenetic Line 4.ANT in Gorny Altai

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