Computational Approach to Design a Potential siRNA Molecule to Silence the Nucleocapsid Gene of Different Nipah Virus Strains of Bangladesh

Journal Title: Bioresearch Communications - Year 2015, Vol 1, Issue 1

Abstract

Nipah virus (NiV) is a single stranded negative-strand RNA virus which was first identified in Malaysia and Singapore. It causes fatal respiratory illness and encephalitis in humans. The progression of this infection is very rapid and causes death within 18 days of infection in most of the cases. Scientists are yet to find out a successful therapeutic approach to treat the NiV affected people. In this study, we have tried to utilize different computational methods to design a siRNA molecule to silence the Nucleocapsid gene of Nipah virus. The nucleocapsid protein (N) gene is one of the most suitable targets for the diagnosis and treatment of NIVs. To find out a common siRNA molecule against five different Nipah virus strains, at first the complete nucleocapsid gene sequences of these five strains were collected from NCBI database. SiDirect 2.0 server was used to design a siRNA molecule against these strains. The siRNA molecule was checked for its secondary structure and GC content using Mfold and OligoCalc server respectively. Blast tool was used to identify any off-target similarity with the designed siRNA molecule. In this study we have proposed a duplex siRNA molecule for N gene silencing of five different strains of NiVs. The siRNA molecule was rationally designed and authenticated using different computational methods. It was also confirmed that the designed siRNA does not match with any off-target sequences. There is no effective therapy available at present to cure Nipah virus infections. The designed siRNA molecule might provide an alternative therapeutic approach against the five major Nipah virus strains in Bangladesh.

Authors and Affiliations

Keywords

Related Articles

Phylogenetic analysis of Bangladeshi population with reference to D1S80 VNTR locus

Phylogenetic studies were conducted with reference to a highly polymorphic VNTR locus, D1S80 in a Bangladeshi population sample. Allelic distribution and genotype frequencies were studied for the locus among 146 unrelat...

Identification of compound heterozygosity for a rare beta-globin gene mutation, codon 15 (-T) with a common mutation IVS1-5 (G>C) by direct sequencing in a Bangladeshi patient.

Most of the beta-thalassemia cases in Bangladesh are caused by 5-7 common mutations in the beta-globin gene. The present study reports a rare mutation in compound heterozygosity with a common mutation in beta-globin gene...

Isolation, Purification and Characterization of an Extracellular Protease from a Locally Isolated Bacillus sphaericus SI-1

An extracellular protease was purified from the culture supernatant of Bacillus Sphaericus strain SI1 isolated from local soil sample. The enzyme purification was primarily performed by ammonium sulfate fractionation, ce...

In Silico Computational Prediction of Anti-Breast Cancer Effect of Abruquinones from Abrus precatorius L.

Knowledge based searching of phytochemicals with potential anti-breast cancer effect from Abrus precatorius (L) with prediction of mechanism of action using computational molecular docking approach was the aim of this in...

Antimicrobial, cytotoxic and antioxidant activities of Barringtonia acutangula (L)

Barringtonia acutangula (Indian Oak) is an important medicinal plant of Bangladesh and India for its antiasthmatic, anticold, antimalerial, antidiarrehal, antiprotozoal, antidysentery stimulating properties. The coarsely...

Download PDF file
  • EP ID EP472484
  • DOI -
  • Views 186
  • Downloads 1

How To Cite

(2015). Computational Approach to Design a Potential siRNA Molecule to Silence the Nucleocapsid Gene of Different Nipah Virus Strains of Bangladesh. Bioresearch Communications, 1(1), 40-44. https://europub.co.uk/articles/-A-472484