DisCoVering potential candidates of RNAi-based therapy for COVID-19 using computational methods

• Main Authors: Narjes Rohani, Fatemeh Ahmadi Moughari, Changiz Eslahchi
• Format: Article
• Language: English
• Published: PeerJ Inc. 2021-02-01
• Series: PeerJ
• Subjects: COVID-19; SARS-CoV-2; RNA intervention-based therapy; miRNA; miRNA-mRNA interaction; siRNA design
• Online Access: https://peerj.com/articles/10505.pdf

The ongoing pandemic of a novel coronavirus (SARS-CoV-2) leads to international concern; thus, emergency interventions need to be taken. Due to the time-consuming experimental methods for proposing useful treatments, computational approaches facilitate investigating thousands of alternatives simultaneously and narrow down the cases for experimental validation. Herein, we conducted four independent analyses for RNA interference (RNAi)-based therapy with computational and bioinformatic methods. The aim is to target the evolutionarily conserved regions in the SARS-CoV-2 genome in order to down-regulate or silence its RNA. miRNAs are denoted to play an important role in the resistance of some species to viral infections. A comprehensive analysis of the miRNAs available in the body of humans, as well as the miRNAs in bats and many other species, were done to find efficient candidates with low side effects in the human body. Moreover, the evolutionarily conserved regions in the SARS-CoV-2 genome were considered for designing novel significant siRNA that are target-specific. A small set of miRNAs and five siRNAs were suggested as the possible efficient candidates with a high affinity to the SARS-CoV-2 genome and low side effects. The suggested candidates are promising therapeutics for the experimental evaluations and may speed up the procedure of treatment design. Materials and implementations are available at: https://github.com/nrohani/SARS-CoV-2.