Open AccessMolecular epidemiology of vibrio cholerae - development of the algorithm for data analysis of whole genome sequencing
Author(s) -
A. S. Vodop’Yanov,
Руслан Вячеславович Писанов,
С. О. Водопьянов,
Б Н Мишанькин,
Igor Paulovich Oleynikov,
В. Д. Кругликов,
С. В. Титова
Publication year - 2016
Publication title -
èpidemiologiâ i infekcionnye bolezni
Language(s) - English
Resource type - Journals
eISSN - 2411-3026
pISSN - 1560-9529
DOI - 10.17816/eid40917
Subject(s) - vibrio cholerae , cholera , genome , biology , whole genome sequencing , russian federation , genetics , geography , virology , gene , regional science , bacteria
The algorithm of the comparative analysis of genome-sequencing data on toxigenic strains of Vibrio cholerae, obtained on different technological platforms was developed. The algorithm includes the establishment of sampling and analysis of genomes and 1929 SNP, localized in the open reading frames. The result of the analysis of genome-sequencing indicates to the presence of several waves of importation of toxigenic strains into the territory of the Russian Federation. As noted relationship strains caused the epidemic process in 1994 in Dagestan and in the Ukraine, and they are clearly discriminated from strains isolated after 2000. The strains have caused epidemic complications in Dagestan in 1994, are distributed between three different clusters, which allows to suggest the presence of at least three independent drifts in cholera in the Republic ofDagestan during the epidemic in 1994, and the presence of strains from Bangladesh and Mozambique in these clusters may indicate to the possible origin of the source of infection. So the flash in 2001 in Kazan, probably is caused by a "Nepalese" strains. Recent events in Haiti epidemic were caused by strains of "Haitian Group", which in the same period of time often were isolated in our country but have not received distribution. In our opinion, the developed algorithm can be used to develop a single unified approach to the study of the molecular epidemiology of cholera in the Russian Federation.