Okwasiimire Rodney, Flint Joseph F, Kayaga Edrine B, Lakin Steven, Pierce Jim, Barrette Roger W, Faburay Bonto, Ndoboli Dickson, Ekakoro John E, Wampande Eddie M, Havas Karyn A
Central Diagnostic Laboratory, College of Veterinary Medicine, Animal Resources and Biosecurity, Makerere University, Kampala P.O. Box 7062, Uganda.
Department of Public and Ecosystem Health, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.
Pathogens. 2023 Jul 6;12(7):912. doi: 10.3390/pathogens12070912.
Blood samples were collected from pigs at six abattoirs in the Kampala, Uganda metropolitan area from May 2021 through June 2022, and tested for African swine fever virus. Thirty-one samples with cycle threshold values < 26 from pigs with different geographic origins, clinical and pathologic signs, and exposure underwent whole genome sequencing. The p72 gene was used to genotype the isolates, and all were found to be genotype IX; whole genome sequences to previous genotype IX isolates confirmed their similarity. Six of the isolates had enough coverage to evaluate single nucleotide polymorphisms (SNPs). Five of the isolates differed from historic regional isolates, but had similar SNPs to one another, and the sixth isolate also differed from historic regional isolates, but also differed from the other five isolates, even though they are all genotype IX. Whole genome sequencing data provide additional detail on viral evolution that can be useful for molecular epidemiology, and understanding the impact of changes in genes to disease phenotypes, and may be needed for vaccine targeting should a commercial vaccine become available. More sequencing of African swine fever virus isolates is needed in Uganda to understand how and when the virus is changing.
2021年5月至2022年6月期间，在乌干达首都坎帕拉地区的6个屠宰场采集猪的血液样本，并检测非洲猪瘟病毒。对来自不同地理来源、具有不同临床和病理体征以及接触史的猪的31份循环阈值<26的样本进行了全基因组测序。使用p72基因对分离株进行基因分型，结果发现所有分离株均为IX型；全基因组序列与之前的IX型分离株比对证实了它们的相似性。其中6个分离株有足够的覆盖度来评估单核苷酸多态性（SNP）。5个分离株与历史区域分离株不同，但彼此之间具有相似的SNP，第6个分离株也与历史区域分离株不同，并且与其他5个分离株也不同，尽管它们均为IX型。全基因组测序数据提供了关于病毒进化的更多细节，这对于分子流行病学、理解基因变化对疾病表型的影响可能是有用的，并且如果有商业疫苗可用，对于疫苗靶向可能也是必需的。乌干达需要对更多非洲猪瘟病毒分离株进行测序，以了解病毒如何以及何时发生变化。
