Mechanistic insights into SARS-CoV-2 epidemic via revealing the features of SARS-CoV-2 coding proteins and host responses upon its infection.
Bioinformatics
; 36(21): 5133-5138, 2021 01 29.
Article
in English
| MEDLINE | ID: covidwho-1343670
ABSTRACT
SUMMARY:
There are seven known coronaviruses that infect humans four mild coronaviruses, including HCoV-229E, HCoV-OC43, HCoV-NL63 and HCoV-HKU1, only cause mild respiratory diseases, and three severe coronaviruses, including SARS-CoV, MERS-CoV and SARS-CoV-2, can cause severe respiratory diseases even death of infected patients. Both infection and death caused by SARS-CoV-2 are still rapidly increasing worldwide. In this study, we demonstrate that viral coding proteins of SARS-CoV-2 have distinct features and are most, medium and least conserved with SARS-CoV, MERS-CoV and the rest four mild coronaviruses (HCoV-229E, HCoV-OC43, HCoV-NL63 and HCoV-HKU1), respectively. Moreover, expression of host responsive genes (HRG), HRG-enriched biological processes and HRG-enriched KEGG pathways upon infection of SARS-CoV-2 shows slightly overlapping with SARS-CoV and MERS-CoV but distinctive to the four mild coronaviruses. Interestingly, enrichment of overactivation of neutrophil by HRGs is only and commonly found in infections of severe SARS-CoV-2, SARS-CoV and MERS-CoV but not in the other four mild coronaviruses, and the related gene networks show different patterns. Clinical data support that overactivation of neutrophil for severe patients can be one major factor for the similar clinical symptoms observed in SARS-CoV-2 infection compared to infections of the other two severe coronavirus (SARS-CoV and MERS-CoV). Taken together, our study provides a mechanistic insight into SARS-CoV-2 epidemic via revealing the conserved and distinct features of SARS-CoV-2, raising the critical role of dysregulation of neutrophil for SARS-CoV-2 infection. AVAILABILITY AND IMPLEMENTATION All data sources and analysis methods related to this manuscript are available in the methods, supplementary materials and GEO database (https//www.ncbi.nlm.nih.gov/geo/). SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Full text:
Available
Collection:
International databases
Database:
MEDLINE
Main subject:
Coronavirus 229E, Human
/
Coronavirus OC43, Human
/
Epidemics
/
COVID-19
Type of study:
Prognostic study
Limits:
Humans
Language:
English
Journal:
Bioinformatics
Journal subject:
Medical Informatics
Year:
2021
Document Type:
Article
Affiliation country:
Bioinformatics
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