Chernyshev Roman, Mazloum Ali, Zinyakov Nikolay, Kolbin Ivan, Shotin Andrey, Korennoy Fedor I, Sprygin Alexander V, Chvala Ilya A, Igolkin Alexey
Federal Centre for Animal Health, 600901 Vladimir, Russia.
Department of Pathobiological Sciences, Louisiana State University, Baton Rouge, LA 70803, USA.
Viruses. 2024 Dec 11;16(12):1907. doi: 10.3390/v16121907.
The lack of data on the whole-genome analysis of genotype II African swine fever virus (ASFV) isolates significantly hinders our understanding of its molecular evolution, and as a result, the range of single nucleotide polymorphisms (SNPs) necessary to describe a more accurate and complete scheme of its circulation. In this regard, this study aimed to identify unique SNPs, conduct phylogenetic analysis, and determine the level of homology of isolates obtained in the period from 2019 to 2022 in the central and eastern regions of Russia. Twenty-one whole-genome sequences of genotype II ASFV isolates were assembled, analyzed, and submitted to GenBank. The isolates in eastern Russia form two clades, "Amur 2022" and "Asia". Within the latter clade, five subclusters can be distinguished, each characterized by a unique set of SNPs and indels. The isolates from the central regions of Russia (2019; 2021) form the "Center of Russia" clade, with two subclusters, "Bryansk 2021" and "Center of Russia 2021" (bootstrap confidence index = 99). The presence of the previously unique genetic variant ASFV for the Kaliningrad region in the wild boar population of the Khabarovsk region (eastern Russia; 2021) has also been confirmed.
关于II型非洲猪瘟病毒（ASFV）分离株的全基因组分析数据匮乏，这严重阻碍了我们对其分子进化的理解，进而影响了描述其更准确、完整传播模式所需的单核苷酸多态性（SNP）范围。在此方面，本研究旨在鉴定独特的SNP，进行系统发育分析，并确定2019年至2022年期间在俄罗斯中部和东部地区获得的分离株的同源性水平。对21个II型ASFV分离株的全基因组序列进行了组装、分析，并提交至GenBank。俄罗斯东部的分离株形成两个分支，即“阿穆尔2022”和“亚洲”。在后者分支内，可以区分出五个亚群，每个亚群都有一组独特的SNP和插入缺失。俄罗斯中部地区（2019年；2021年）的分离株形成“俄罗斯中部”分支，有两个亚群，即“布良斯克2021”和“俄罗斯中部2021”（自展置信指数 = 99）。哈巴罗夫斯克地区（俄罗斯东部；2021年）野猪种群中曾在加里宁格勒地区发现的独特ASFV基因变体的存在也得到了证实。
