TY - JOUR

T1 - The Development of the SARS-CoV-2 Epidemic in Different Regions of Siberia in the 2020-2022 Period

AU - Palyanova, Natalia V

AU - Sobolev, Ivan A

AU - Palyanov, Andrey Yu

AU - Kurskaya, Olga G

AU - Komissarov, Andrey B

AU - Danilenko, Daria M

AU - Fadeev, Artem V

AU - Shestopalov, Alexander M

N1 - This research was funded by RSF, grant number 23-64-00005.

PY - 2023/9/27

Y1 - 2023/9/27

N2 - The comparison of the development of the SARS-CoV-2 epidemic in several neighboring regions can help researchers to assess the risks and develop more effective strategies and approaches in the field of preventive medicine. We analyzed the infection and mortality statistics for the 2020-2022 period in ten individual regions of the Siberian Federal District of Russia. We also sequenced complete genomes, which allowed us to analyze the genetic diversity of SARS-CoV-2 circulated in each of the ten regions and to build a phylogenetic dendrogram for the virus variants. The ParSeq v.1.0 software was developed to automate and speed up the processing and analysis of viral genomes. At the beginning of the pandemic, in the first two waves, the B.1.1 variant (20B) dominated in all regions of the Siberian Federal District. The third and fourth waves were caused by the Delta variant. Mortality during this period was at a maximum; the incidence was quite high, but the number of deposited genomes with GISAID during this period was extremely low. The maximum incidence was at the beginning of 2022, which corresponds to the arrival of the Omicron variant in the region. The BA.5.2 variant became the dominant one. In addition, by using NextClade, we identified three recombinants in the most densely populated areas.

AB - The comparison of the development of the SARS-CoV-2 epidemic in several neighboring regions can help researchers to assess the risks and develop more effective strategies and approaches in the field of preventive medicine. We analyzed the infection and mortality statistics for the 2020-2022 period in ten individual regions of the Siberian Federal District of Russia. We also sequenced complete genomes, which allowed us to analyze the genetic diversity of SARS-CoV-2 circulated in each of the ten regions and to build a phylogenetic dendrogram for the virus variants. The ParSeq v.1.0 software was developed to automate and speed up the processing and analysis of viral genomes. At the beginning of the pandemic, in the first two waves, the B.1.1 variant (20B) dominated in all regions of the Siberian Federal District. The third and fourth waves were caused by the Delta variant. Mortality during this period was at a maximum; the incidence was quite high, but the number of deposited genomes with GISAID during this period was extremely low. The maximum incidence was at the beginning of 2022, which corresponds to the arrival of the Omicron variant in the region. The BA.5.2 variant became the dominant one. In addition, by using NextClade, we identified three recombinants in the most densely populated areas.

KW - Humans

KW - Siberia/epidemiology

KW - SARS-CoV-2/genetics

KW - Phylogeny

KW - COVID-19/epidemiology

KW - Pandemics

UR - https://www.scopus.com/record/display.uri?eid=2-s2.0-85175202785&origin=inward&txGid=5444546cac673bda084179c4fa93c8e6

U2 - 10.3390/v15102014

DO - 10.3390/v15102014

M3 - Article

C2 - 37896792

VL - 15

JO - Viruses

JF - Viruses

SN - 1999-4915

IS - 10

M1 - 2014

ER -