用證據說話：這篇論文就用bp單位來論述冠狀病毒CDS片段編碼序列。Bioinformatics analysis of the

 

https://www.researchgate.net/publication/338689521_Bioinformatics_analysis_of_the_Wuhan_2019_human_coronavirus_genome

 

Bioinformatics analysis of the Wuhan 2019 human coronavirus genome

Abstract

In 2019, a human coronavirus has caused the pneumonia outbreak in Wuhan (a city of China). This virus was predicted as a newly mutated coronavirus (named the Wuhan 2019 human coronavirus), as it caused clinical symptoms different from Severe Acute Respiratory Syndrome (SARS) in the 2003 outbreak. Currently, most of the researchers are simply using the complete genome or specific structural gene sequences to investigate coronavirus (e.g. phylogenetic analysis) without considering the functions of the products from coronavirus genes. To overcome this shortcoming, we proposed the joint analysis of the molecular function and phylogeny, and applied it in our previous study of betacoronavirus genomes. In that study, we identified a 22-bp complemented palindrome from a highly conserved Coding Sequence (CDS). Both the 22-bp complemented palindrome (named Nankai complemented palindrome) and the CDS (named Nankai CDS), evolutionary conserved in betacoronavirus genomes, were identified as genomic features associated to the molecular functions of betacoronavirus. In the present study, we used these two genomic features to trace the origin of the Wuhan 2019 human coronavirus (GenBank: MN908947) and conduct a preliminary study of the mechanisms in the cross-species infection and host adaption of betacoronavirus. Our analytical results show that the Wuhan 2019 human coronavirus with large differences from the SARS coronavirus, may originate from betacoronaviruses in Chinese horseshoe bats (Rhinolophus sinicus). The most important finding is that the alternative translation of Nankai CDS could produce more than 17 putative proteins, which may be responsible for the host adaption. The genotyping of 13 viruses using the 17 putative proteins revealed the high mutation rate and diversity of betacoronavirus. This provided the basis for the development of strategy to prevent and control the outbreak of betacoronavirus. Our study, for the first time, aimed to explain the reason for the high host adaptability of the multi-host betacoronavirus at the molecular level using large amounts of genomic data. The findings in the present study laid foundations for the rapid detection, genotyping, vaccine development and drug design of, but not limited to coronavirus.