Different SARS-CoV-2 haplotypes associate with geographic origin and case fatality rates of COVID-19 patients.
Different SARS-CoV-2 haplotypes associate with geographic origin and case fatality rates of COVID-19 patients.
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不同的SARS-CoV-2单倍型与COVID-19患者的地理来源和病死率相关。
DOI：
10.1016/j.meegid.2021.104730
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发表时间：
2021-06
期刊：
影响因子：
--
通讯作者：
West B
中科院分区：
文献类型：
--
作者：
Goyal M;De Bruyne K;van Belkum A;West B
目前的COVID-19大流行是由SARS-CoV-2病毒引起的，目前已在单核苷酸多态性（SNP）水平上鉴定出许多变体。我们在这里显示，692个SARS-CoV-2基因组序列中的不同等位基因变异与地理来源（p < 0.000001）和COVID-19病例严重程度（p = 0.016）具有统计学显著相关性。地理变异本身与病例严重程度和等位基因变异相关，特别是在印度来源的菌株中（p < 0.000001）。使用一种新的替代生物信息学方法，我们能够证实D 614 G突变的存在与来自美国共同地理来源的127个序列样本中病例严重程度增加相关（p = 0.018）。虽然留下开放的致病机制的问题，这表明，在特定的地理位置，某些基因型的病毒比其他致病性。我们在这里表明，病毒基因组多态性可能会对案件的严重程度有影响时，控制其他因素，但这种影响被淹没的其他因素时，比较不同地理区域的情况。
The current pandemic of COVID-19 is caused by the SARS-CoV-2 virus for which many variants at the Single Nucleotide Polymorphism (SNP) level have now been identified. We show here that different allelic variants among 692 SARS-CoV-2 genome sequences display a statistically significant association with geographic origin (p < 0.000001) and COVID-19 case severity (p = 0.016). Geographic variation in itself is associated with both case severity and allelic variation especially in strains from Indian origin (p < 0.000001). Using an new alternative bioinformatics approach we were able to confirm that the presence of the D614G mutation correlates with increased case severity in a sample of 127 sequences from a shared geographic origin in the US (p = 0.018). While leaving open the question on the pathogenesis mechanism involved, this suggests that in specific geographic locales certain genotypes of the virus are more pathogenic than others. We here show that viral genome polymorphisms may have an effect on case severity when other factors are controlled for, but that this effect is swamped out by these other factors when comparing cases across different geographic regions.
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