A new insight into sex-specific non-coding RNAs and networks in response to SARS-CoV-2

Autor: Nahid Askari, Morteza Hadizadeh, Maryam Rashidifar
Jazyk: angličtina
Rok vydání: 2021
Předmět:
Microbiology (medical)
Male
ACE
angiotensin-converting enzyme
Coronavirus M Proteins
DEGs
differentially expressed genes
Microbiology
SARS-CoV-2
severe acute respiratory syndrome coronavirus 2
Severity of Illness Index
Article
miRNA
micro RNA
lncRNA
long non-coding RNA
Coronavirus Envelope Proteins
lncRNA
Sex Factors
GSEA
gene set enrichment analysis
Databases
Genetic
Genetics
Coronavirus Nucleocapsid Proteins
Humans
GEO
Gene Expression Omnibus
RNA
Messenger
Molecular Biology
Ecology
Evolution
Behavior and Systematics
GO
gene ontology
microRNA
SARS-CoV-2
COVID-19
Computational Biology
Phosphoproteins
MicroRNAs
Infectious Diseases
miR-29 family
Gene Expression Regulation
Host-Pathogen Interactions
Spike Glycoprotein
Coronavirus
DEmRNAs
differentially expressed mRNAs
Female
RNA
Long Noncoding
Angiotensin-Converting Enzyme 2
Protein Binding
Signal Transduction
Zdroj: Infection, Genetics and Evolution
ISSN: 1567-7257
1567-1348
Popis: SARS-CoV-2 is the RNA virus responsible for COVID-19, the prognosis of which has been found to be slightly worse in men. The present study aimed to analyze the expression of different mRNAs and their regulatory molecules (miRNAs and lncRNAs) to consider the potential existence of sex-specific expression patterns and COVID-19 susceptibility using bioinformatics analysis. The binding sites of all human mature miRNA sequences on the SARS-CoV-2 genome nucleotide sequence were predicted by the miRanda tool. Sequencing data was excavated using the Galaxy web server from GSE157103, and the output of feature counts was analyzed using DEseq2 packages to obtain differentially expressed genes (DEGs). Gene set enrichment analysis (GSEA) and DEG annotation analyses were performed using the ToppGene and Metascape tools. Using the RNA Interactome Database, we predicted interactions between differentially expressed lncRNAs and differentially expressed mRNAs. Finally, their networks were constructed with top miRNAs. We identified 11 miRNAs with three to five binding sites on the SARS-COVID-2 genome reference. MiR-29c-3p, miR-21-3p, and miR-6838-5p occupied four binding sites, and miR-29a-3p had five binding sites on the SARS-CoV-2 genome. Moreover, miR-29a-3p, and miR-29c-3p were the top miRNAs targeting DEGs. The expression levels of miRNAs (125, 181b, 130a, 29a, b, c, 212, 181a, 133a) changed in males with COVID-19, in whom they regulated ACE2 expression and affected the immune response by affecting phagosomes, complement activation, and cell-matrix adhesion. Our results indicated that XIST lncRNA was up-regulated, and TTTY14, TTTY10, and ZFY-AS1 lncRN as were down-regulated in both ICU and non-ICU men with COVID-19. Dysregulation of noncoding-RNAs has critical effects on the pathophysiology of men with COVID-19, which is why they may be used as biomarkers and therapeutic agents. Overall, our results indicated that the miR-29 family target regulation patterns and might become promising biomarkers for severity and survival outcome in men with COVID-19.
Graphical abstract Unlabelled Image
Databáze: OpenAIRE
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