Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017
African swine fever virus (ASFV), classified as genotype II, was introduced into Georgia in 2007, and from there, it spread quickly and extensively across the Caucasus to Russia, Europe and Asia. The molecular epidemiology and evolution of these isolates are predominantly investigated by means of ph...
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MDPI AG
2022-08-01
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| Online Access: | https://www.mdpi.com/2076-0817/11/8/919 |
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| author | Ali Mazloum Antoinette Van Schalkwyk Roman Chernyshev Andrey Shotin Fedor I. Korennoy Alexey Igolkin Alexander Sprygin |
| author_facet | Ali Mazloum Antoinette Van Schalkwyk Roman Chernyshev Andrey Shotin Fedor I. Korennoy Alexey Igolkin Alexander Sprygin |
| author_sort | Ali Mazloum |
| collection | DOAJ |
| description | African swine fever virus (ASFV), classified as genotype II, was introduced into Georgia in 2007, and from there, it spread quickly and extensively across the Caucasus to Russia, Europe and Asia. The molecular epidemiology and evolution of these isolates are predominantly investigated by means of phylogenetic analysis based on complete genome sequences. Since this is a costly and time-consuming endeavor, short genomic regions containing informative polymorphisms are pursued and utilized instead. In this study, sequences of the central variable region (CVR) located within the B602L gene were determined for 55 ASFV isolates submitted from 526 active African swine fever (ASF) outbreaks occurring in 23 different regions across the Russian Federation (RF) between 2013 and 2017. The new sequences were compared to previously published data available from Genbank, representing isolates from Europe and Asia. The sequences clustered into six distinct groups. Isolates from Estonia clustered into groups 3 and 4, whilst sequences from the RF were divided into the remaining four groups. Two of these groups (5 and 6) exclusively contained isolates from the RF, while group 2 included isolates from Russia as well as Chechnya, Georgia, Armenia, Azerbaijan and Ukraine. In contrast, group 1 was the largest, containing sequences from the RF, Europe and Asia, and was represented by the sequence from the first isolate in Georgia in 2007. Based on these results, it is recommended that the CVR sequences contain significant informative polymorphisms to be used as a marker for investigating the epidemiology and spread of genotype II ASFVs circulating in the RF, Europe and Asia. |
| first_indexed | 2024-03-09T03:59:40Z |
| format | Article |
| id | doaj.art-9defd907384642008001e919160ab23c |
| institution | Directory Open Access Journal |
| issn | 2076-0817 |
| language | English |
| last_indexed | 2024-03-09T03:59:40Z |
| publishDate | 2022-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Pathogens |
| spelling | doaj.art-9defd907384642008001e919160ab23c2023-12-03T14:15:45ZengMDPI AGPathogens2076-08172022-08-0111891910.3390/pathogens11080919Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017Ali Mazloum0Antoinette Van Schalkwyk1Roman Chernyshev2Andrey Shotin3Fedor I. Korennoy4Alexey Igolkin5Alexander Sprygin6Reference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaAgricultural Research Council-Onderstepoort Veterinary Institute, 100 Old Soutpan Road, Onderstepoort 0110, South AfricaReference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaReference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaReference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaReference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaReference Laboratory for African Swine Fever Virus, FGBI “Federal Centre for Animal Health” (FGBI “ARRIAH”), 600901 Vladimir, RussiaAfrican swine fever virus (ASFV), classified as genotype II, was introduced into Georgia in 2007, and from there, it spread quickly and extensively across the Caucasus to Russia, Europe and Asia. The molecular epidemiology and evolution of these isolates are predominantly investigated by means of phylogenetic analysis based on complete genome sequences. Since this is a costly and time-consuming endeavor, short genomic regions containing informative polymorphisms are pursued and utilized instead. In this study, sequences of the central variable region (CVR) located within the B602L gene were determined for 55 ASFV isolates submitted from 526 active African swine fever (ASF) outbreaks occurring in 23 different regions across the Russian Federation (RF) between 2013 and 2017. The new sequences were compared to previously published data available from Genbank, representing isolates from Europe and Asia. The sequences clustered into six distinct groups. Isolates from Estonia clustered into groups 3 and 4, whilst sequences from the RF were divided into the remaining four groups. Two of these groups (5 and 6) exclusively contained isolates from the RF, while group 2 included isolates from Russia as well as Chechnya, Georgia, Armenia, Azerbaijan and Ukraine. In contrast, group 1 was the largest, containing sequences from the RF, Europe and Asia, and was represented by the sequence from the first isolate in Georgia in 2007. Based on these results, it is recommended that the CVR sequences contain significant informative polymorphisms to be used as a marker for investigating the epidemiology and spread of genotype II ASFVs circulating in the RF, Europe and Asia.https://www.mdpi.com/2076-0817/11/8/919African swine fever viruscentral variable regionsingle-nucleotide polymorphismphylogenetic analysis |
| spellingShingle | Ali Mazloum Antoinette Van Schalkwyk Roman Chernyshev Andrey Shotin Fedor I. Korennoy Alexey Igolkin Alexander Sprygin Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 Pathogens African swine fever virus central variable region single-nucleotide polymorphism phylogenetic analysis |
| title | Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 |
| title_full | Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 |
| title_fullStr | Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 |
| title_full_unstemmed | Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 |
| title_short | Genetic Characterization of the Central Variable Region in African Swine Fever Virus Isolates in the Russian Federation from 2013 to 2017 |
| title_sort | genetic characterization of the central variable region in african swine fever virus isolates in the russian federation from 2013 to 2017 |
| topic | African swine fever virus central variable region single-nucleotide polymorphism phylogenetic analysis |
| url | https://www.mdpi.com/2076-0817/11/8/919 |
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