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Molecular Biotechnology

, Volume 61, Issue 12, pp 945–957 | Cite as

Structural Characterization of Open Reading Frame-Encoded Functional Genes from Tilapia Lake Virus (TiLV)

  • Varsha Acharya
  • Hirak Jyoti Chakraborty
  • Ajaya Kumar Rout
  • Sucharita Balabantaray
  • Bijay Kumar Behera
  • Basanta Kumar DasEmail author
Original paper
  • 116 Downloads

Abstract

In recent years, large-scale mortalities are observed in tilapia due to infection with a novel orthomyxo-like virus named, tilapia lake virus (TiLV) which is marked to be a severe threat to universal tilapia industry. Currently, there are knowledge gaps relating to the antiviral peptide as well as there are no affordable vaccines or drugs available against TiLV yet. To understand the spreading of infection of TiLV in different organs of Oreochromis niloticus, RT-PCR analysis has been carried out. The gene segments of TiLV were retrieved from the NCBI database for computational biology analysis. The 14 functional genes were predicted from the 10 gene segments of TiLV. Phylogenetic analysis was employed to find out a better understanding for the evolution of tilapia lake virus genes. Out of 14 proteins, only six proteins show transmembrane helix region. Moreover, molecular modeling and molecular dynamics simulations of the predicted proteins revealed structural stability of the protein stabilized after 10-ns simulation. Overall, our study provided a basic bioinformatics on functional proteome of TiLV. Further, this study could be useful for development of novel peptide-based therapeutics to control TiLV infection.

Keywords

TiLV ORF finder Phylogenetic analysis Molecular dynamics simulation Tissue tropism 

Notes

Acknowledgements

The authors thank the Director, ICAR-Central Inland Fisheries Research Institute, Barrackpore, Kolkata, India, for providing institutional facility. The authors also thank Mr. Asim Kumar Jana (Senior Technical Assistant) and Mr. Prasenjit Paria, Research Scholar of the ICAR-CIFRI for providing simultaneous encourage and support for this work.

Compliance with Ethical Standards

Conflicts of interest

The authors have declared that they have no competing interests.

Supplementary material

12033_2019_217_MOESM1_ESM.doc (8.8 mb)
Supplementary material 1 (DOC 8985 kb)

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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Varsha Acharya
    • 1
  • Hirak Jyoti Chakraborty
    • 1
  • Ajaya Kumar Rout
    • 1
  • Sucharita Balabantaray
    • 2
  • Bijay Kumar Behera
    • 1
  • Basanta Kumar Das
    • 1
    Email author
  1. 1.Biotechnology LaboratoryICAR-Central Inland Fisheries Research InstituteKolkataIndia
  2. 2.Department of BioinformaticsOdisha University of Agriculture and TechnologyBhubaneswarIndia

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