Computational Design of Potential Sirna Molecules for Silencing nucleoprotein Gene of Rabies Virus

Abstract

Aim: Rabies virus infections are a global threat to human and animal health, yet no progressive curative therapy has been developed. In this study, the nucleoprotein gene of rabies virus which is responsible for viral infection was used as a target to design our desired siRNA. Methods: The conserved regions were analyzed by doing alignment of sequences from different strains. Subsequently, different computational tools were used for designing and validation of siRNA molecules. Results: We identified four probable siRNA molecules from twelve different strains of rabies virus which may silence the nucleoprotein gene and inhibit the multiplication of the virus. Conclusion: Our study may help to take an effective therapeutic approach against rabies virus and lead to better control of rabies in humans.

Strategic Design of Dicer Substrate siRNA to Mitigate the Resistance Mediated by ABCC1 in Doxorubicin-resistant Breast Cancer

“…Secondary structure and free energy (∆G) of folding for the ABCC 1 dicer-based siRNA was predicted at 310.15 K (equivalent to 37º) using RNA structure web server [10] .…”

“…This approach also serves as an advantage in preventing the consideration of passenger strand as guide due to its thermodynamically unstable ends. In this effort of producing a highly functional siRNA, features that facilitate the guide strand selection by the RISC along with an additional parameter to predict the secondary structure of siRNA was also employed, as these factors impact potency and stability [10] . In this regard, minimum free energy (∆G) of the siRNA secondary structure was the determinant, and the folding energy for the designed siRNA was 2.3 at 37.0º.…”

“…Another determinant of efficacy of the knockdown depends on the interaction of siRNA with target mRNA. It is predicted using a tool Bifold, where it hybridizes target mRNA and siRNA to determine the lowest binding free energy [10,21] . In our study, the free energy with our designed siRNA was -45.3, which is strong enough to bind with target mRNA, thereby preventing translation as depicted in fig.…”

A computational approach to design potential siRNA molecules as a prospective tool for silencing nucleocapsid phosphoprotein and surface glycoprotein gene of SARS-CoV-2

“…Silencing of mRNA or post-transcriptional gene silencing by RNA interference (RNAi) is a regulatory cellular mechanism. RNAi is a prospective tool for the control of human viral infections [ [25] , [26] , [27] ]. Small interfering RNAs (siRNAs) and micro RNAs (miRNAs) are involved in the RNA interference (RNAi) pathway, where they hybridize to complementary mRNA molecules and neutralizes mRNA causing suppression of gene expression or translation [ 28 ].…”

Subtractive proteomics approach to Unravel the druggable proteins of the emerging pathogen Waddlia chondrophila and drug repositioning on its MurB protein

“…Conventional approaches to drug exploration and advancements are strenuous, sluggish, and expensive [ 31 ]. To reduce these drawbacks, in-silico methods can be employed as an alternative approach thereby facilitating numerous discoveries [ 28 , 29 , 30 , 32 , 33 , 34 , 35 ]. These methods are dynamic, rapid, and cost-effective than traditional drug discovery and development methods [ 31 ].…”