Protein Structure and Sequence Reanalysis of 2019-nCoV Genome Refutes Snakes as Its Intermediate Host and the Unique Similarity between Its Spike Protein Insertions and HIV-1
Protein Structure and Sequence Reanalysis of 2019-nCoV Genome Refutes Snakes as Its Intermediate Host and the Unique Similarity between Its Spike Protein Insertions and HIV-1
复制标题
DOI：
10.1021/acs.jproteome.0c00129
复制
发表时间：
2020-04-03
影响因子：
4.4
通讯作者：
Zhang, Yang
中科院分区：
文献类型：
--
作者：
Zhang, Chengxin;Zheng, Wei;Zhang, Yang
由于2019-nCoV冠状病毒感染正在迅速发展成为全球肺炎疫情，因此迫切需要对其传播和细胞机制进行仔细分析。在这篇文章中，我们首先分析了最近的两项研究，得出的结论是蛇是2019-nCoV的中间宿主，并且2019-nCoV刺突蛋白插入与HIV-1具有独特的相似性。然而，使用最先进的生物信息学方法和数据库建立在更大规模数据集上的分析的重新实施提出了反驳这些结论的明确证据。接下来，使用来自Manis javanica的宏基因组样本，我们组装了2019-nCoV样冠状病毒的基因组草图，该基因组与2019-nCoV基因组显示出73%的覆盖率和91%的序列同一性。特别是，刺突表面糖蛋白受体结合结构域的比对显示，与2019-nCoV相比，蝙蝠冠状病毒RaTG 13的变异是Manis冠状病毒的四倍，这表明穿山甲是2019-nCoV从蝙蝠传播到人类的缺失环节。
As the infection of 2019-nCoV coronavirus is quickly developing into a global pneumonia epidemic, the careful analysis of its transmission and cellular mechanisms is sorely needed. In this Communication, we first analyzed two recent studies that concluded that snakes are the intermediate hosts of 2019-nCoV and that the 2019-nCoV spike protein insertions share a unique similarity to HIV-1. However, the reimplementation of the analyses, built on larger scale data sets using state-of-theart bioinformatics methods and databases, presents clear evidence that rebuts these conclusions. Next, using metagenomic samples from Manis javanica, we assembled a draft genome of the 2019-nCoV-like coronavirus, which shows 73% coverage and 91% sequence identity to the 2019-nCoV genome. In particular, the alignments of the spike surface glycoprotein receptor binding domain revealed four times more variations in the bat coronavirus RaTG13 than in the Manis coronavirus compared with 2019-nCoV, suggesting the pangolin as a missing link in the transmission of 2019-nCoV from bats to human.