Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia
Following its emergence at the end of 2021, the Omicron SARS-CoV-2 variant rapidly spread around the world and became a dominant variant of concern (VOC). The appearance of the new strain provoked a new pandemic wave with record incidence rates. Here, we analyze the dissemination dynamics of Omicron...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-08-01
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| Series: | Microorganisms |
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| Online Access: | https://www.mdpi.com/2076-2607/10/8/1676 |
| _version_ | 1797408815497347072 |
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| author | Anna Gladkikh Vladimir Dedkov Alena Sharova Ekaterina Klyuchnikova Valeriya Sbarzaglia Tatiana Arbuzova Majid Forghani Edward Ramsay Anna Dolgova Anna Shabalina Nadezhda Tsyganova Areg Totolian |
| author_facet | Anna Gladkikh Vladimir Dedkov Alena Sharova Ekaterina Klyuchnikova Valeriya Sbarzaglia Tatiana Arbuzova Majid Forghani Edward Ramsay Anna Dolgova Anna Shabalina Nadezhda Tsyganova Areg Totolian |
| author_sort | Anna Gladkikh |
| collection | DOAJ |
| description | Following its emergence at the end of 2021, the Omicron SARS-CoV-2 variant rapidly spread around the world and became a dominant variant of concern (VOC). The appearance of the new strain provoked a new pandemic wave with record incidence rates. Here, we analyze the dissemination dynamics of Omicron strains in Saint Petersburg, Russia’s second largest city. The first case of Omicron lineage BA.1 was registered in St. Petersburg on 10 December 2021. Rapid expansion of the variant and increased incidence followed. The peak incidence was reached in February 2022, followed by an observed decline coinciding with the beginning of spread of the BA.2 variant. SARS-CoV-2 lineage change dynamics were shown in three categories: airport arrivals; clinical outpatients; and clinical inpatients. It is shown that the distribution of lineage BA.1 occurred as a result of multiple imports. Variability within the BA.1 and BA.2 lineages in St. Petersburg was also revealed. On the basis of phylogenetic analysis, an attempt was made to trace the origin of the first imported strain, and an assessment was made of the quarantine measures used to prevent the spread of this kind of infection. |
| first_indexed | 2024-03-09T04:04:03Z |
| format | Article |
| id | doaj.art-e4f91b3d1a0044b1ab490861890960f1 |
| institution | Directory Open Access Journal |
| issn | 2076-2607 |
| language | English |
| last_indexed | 2024-03-09T04:04:03Z |
| publishDate | 2022-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Microorganisms |
| spelling | doaj.art-e4f91b3d1a0044b1ab490861890960f12023-12-03T14:09:50ZengMDPI AGMicroorganisms2076-26072022-08-01108167610.3390/microorganisms10081676Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, RussiaAnna Gladkikh0Vladimir Dedkov1Alena Sharova2Ekaterina Klyuchnikova3Valeriya Sbarzaglia4Tatiana Arbuzova5Majid Forghani6Edward Ramsay7Anna Dolgova8Anna Shabalina9Nadezhda Tsyganova10Areg Totolian11Saint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaKrasovskii Institute of Mathematics and Mechanics, Yekaterinburg 620108, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaSaint Petersburg Pasteur Institute, Saint Petersburg 197101, RussiaFollowing its emergence at the end of 2021, the Omicron SARS-CoV-2 variant rapidly spread around the world and became a dominant variant of concern (VOC). The appearance of the new strain provoked a new pandemic wave with record incidence rates. Here, we analyze the dissemination dynamics of Omicron strains in Saint Petersburg, Russia’s second largest city. The first case of Omicron lineage BA.1 was registered in St. Petersburg on 10 December 2021. Rapid expansion of the variant and increased incidence followed. The peak incidence was reached in February 2022, followed by an observed decline coinciding with the beginning of spread of the BA.2 variant. SARS-CoV-2 lineage change dynamics were shown in three categories: airport arrivals; clinical outpatients; and clinical inpatients. It is shown that the distribution of lineage BA.1 occurred as a result of multiple imports. Variability within the BA.1 and BA.2 lineages in St. Petersburg was also revealed. On the basis of phylogenetic analysis, an attempt was made to trace the origin of the first imported strain, and an assessment was made of the quarantine measures used to prevent the spread of this kind of infection.https://www.mdpi.com/2076-2607/10/8/1676SARS-CoV-2COVID-19Omicron BA.1Omicron BA.2Russia |
| spellingShingle | Anna Gladkikh Vladimir Dedkov Alena Sharova Ekaterina Klyuchnikova Valeriya Sbarzaglia Tatiana Arbuzova Majid Forghani Edward Ramsay Anna Dolgova Anna Shabalina Nadezhda Tsyganova Areg Totolian Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia Microorganisms SARS-CoV-2 COVID-19 Omicron BA.1 Omicron BA.2 Russia |
| title | Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia |
| title_full | Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia |
| title_fullStr | Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia |
| title_full_unstemmed | Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia |
| title_short | Uninvited Guest: Arrival and Dissemination of Omicron Lineage SARS-CoV-2 in St. Petersburg, Russia |
| title_sort | uninvited guest arrival and dissemination of omicron lineage sars cov 2 in st petersburg russia |
| topic | SARS-CoV-2 COVID-19 Omicron BA.1 Omicron BA.2 Russia |
| url | https://www.mdpi.com/2076-2607/10/8/1676 |
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