International Livestock Research Institute, PO Box 30709, Nairobi 00100, Kenya.
Virology. 2010 Apr 25;400(1):128-36. doi: 10.1016/j.virol.2010.01.019. Epub 2010 Feb 20.
Viral molecular epidemiology has traditionally analyzed variation in single genes. Whole genome phylogenetic analysis of 123 concatenated genes from 11 ASFV genomes, including E75, a newly sequenced virulent isolate from Spain, identified two clusters. One contained South African isolates from ticks and warthog, suggesting derivation from a sylvatic transmission cycle. The second contained isolates from West Africa and the Iberian Peninsula. Two isolates, from Kenya and Malawi, were outliers. Of the nine genomes within the clusters, seven were within p72 genotype 1. The 11 genomes sequenced comprised only 5 of the 22 p72 genotypes. Comparison of synonymous and non-synonymous mutations at the genome level identified 20 genes subject to selection pressure for diversification. A novel gene of the E75 virus evolved by the fusion of two genes within the 360 multicopy family. Comparative genomics reveals high diversity within a limited sample of the ASFV viral gene pool.
病毒分子流行病学传统上分析单个基因的变异。对来自 11 个 ASF 病毒基因组的 123 个串联基因的全基因组系统发育分析，包括来自西班牙的新测序的强毒分离株 E75，确定了两个聚类。一个聚类包含来自蜱和疣猪的南非分离株，表明源自森林传播周期。第二个聚类包含来自西非和伊比利亚半岛的分离株。两个来自肯尼亚和马拉维的分离株是例外。在聚类内的九个基因组中，有七个属于 p72 基因型 1。测序的 11 个基因组仅包含 22 个 p72 基因型中的 5 个。在基因组水平上比较同义突变和非同义突变，确定了 20 个受多样化选择压力影响的基因。E75 病毒的一个新基因是通过 360 多拷贝家族内的两个基因融合进化而来的。比较基因组学揭示了 ASF 病毒基因库中有限样本内的高度多样性。
