Abstract
The recent outbreak of COVID-19 caused by a new zoonotic origin coronavirus (SARS-CoV-2 or 2019-nCoV) has sound the alarm for the potential spread of epidemic coronavirus crossing species. With the urgent needs to assist disease control and to provide invaluable scientific information, we developed the coronavirus database (CoVdb), an online genomic, proteomic and evolutionary analysis platform. CoVdb has brought together genomes of more than 5000 coronavirus strains, which were collected from 1941 to 2020, in more than 60 countries and in hosts belonging to more than 30 species, ranging from fish to human. CoVdb presents comprehensive genomic information, such as gene function, subcellular localization, topology and protein structure. To facilitate coronavirus research, CoVdb also provides flexible search approaches and online tools to view and analyze protein structure, to perform multiple alignments, to automatically build phylogenetic trees and to carry on evolutionary analyses. CoVdb can be accessed freely at http://covdb.popgenetics.net. Hopefully, it will accelerate the progress to develop medicines or vaccines to control the pandemic of COVID-19.
Highlights
Coronaviridae is a group of positive-sense, single-strand RNA viruses with a likely ancient origin, and human coronavirus repeatedly emerged during the past hundred years [1]
We renamed all human isolates in the format of ‘Human_name_accession’ (‘name’ is 2019-nCoV (SARS-CoV-2), SARS, MERS or other human coronavirus strain names) and all nonhuman isolates in the format of ‘host_accession’ (‘host’ is bat, camel, cow or other coronavirus hosts)
A total of 3414 (59.8%) in coronavirus database (CoVdb) are human isolates and 217 (3.8%) are bat isolates, which are referred as the possible source of human coronavirus [50, 51]
Summary
Coronaviridae is a group of positive-sense, single-strand RNA viruses with a likely ancient origin, and human coronavirus repeatedly emerged during the past hundred years [1]. As a potential dangerous zoonotic disease, the previous outbreaks of respiratory syndrome-related coronavirus (SARS-CoV). Middle East respiratory syndrome-related coronavirus (MERS-CoV) have plagued the general public and researchers in the past years [3]. The virus is the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), named 2019 novel coronavirus (2019nCoV), causing coronavirus disease-2019 (COVID-19). Till it has resulted in more than 16 million confirmed infections worldwide [4, 5] with the number of (page number not for citation purposes)
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