About: Genomic, geographic and temporal distributions of SARS-CoV-2 mutations

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An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Genomic, geographic and temporal distributions of SARS-CoV-2 mutations
Creator	Chen, Chun-Houh Chen, Chia-Wei Kao, Chiun-How Liao, Hsiao-Chi Liao, James Lin, Yin-Chun Wang, Jen-Hung Yang, Chih-Ting Yang, Hsin-Chou
Source	BioRxiv
abstract	The COVID-19 pandemic is the most significant public health issue in recent history. Its causal agent, SARS-CoV-2, has evolved rapidly since its first emergence in December 2019. Mutations in the viral genome have critical impacts on the adaptation of viral strains to the local environment, and may alter the characteristics of viral transmission, disease manifestation, and the efficacy of treatment and vaccination. Using the complete sequences of 1,932 SARS-CoV-2 genomes, we examined the genomic, geographic and temporal distributions of aged, new, and frequent mutations of SARS-CoV-2, and identified six phylogenetic clusters of the strains, which also exhibit a geographic preference in different continents. Mutations in the form of single nucleotide variations (SNVs) provide a direct interpretation for the six phylogenetic clusters. Linkage disequilibrium, haplotype structure, evolutionary process, global distribution of mutations unveiled a sketch of the mutational history. Additionally, we found a positive correlation between the average mutation count and case fatality, and this correlation had strengthened with time, suggesting an important role of SNVs on disease outcomes. This study suggests that SNVs may become an important consideration in virus detection, clinical treatment, drug design, and vaccine development to avoid target shifting, and that continued isolation and sequencing is a crucial component in the fight against this pandemic. Significance Statement Mutation is the driving force of evolution for viruses like SARS-CoV-2, the causal agent of COVID-19. In this study, we discovered that the genome of SARS-CoV-2 is changing rapidly from the originally isolated form. These mutations have been spreading around the world and caused more than 2.5 million of infected cases and 170 thousands of deaths. We found that fourteen frequent mutations identified in this study can characterize the six main clusters of SARS-CoV-2 strains. In addition, we found the mutation burden is positively correlated with the fatality of COVID-19 patients. Understanding mutations in the SARS-CoV-2 genome will provide useful insight for the design of treatment and vaccination.
has issue date	2020-04-24(xsd:dateTime)
bibo:doi	10.1101/2020.04.22.055863
has license	biorxiv
sha1sum (hex)	c9b74b08ea5da70d379995b796eba890cf3e7aea
schema:url	https://doi.org/10.1101/2020.04.22.055863
resource representing a document's title	Genomic, geographic and temporal distributions of SARS-CoV-2 mutations
schema:publication	bioRxiv
resource representing a document's body	covid:c9b74b08ea5da70d379995b796eba890cf3e7aea#body_text
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