A GLOBAL COMPARISON AND ANALYSIS OF NEURAMINIDASE H1N1 STRAIN OF INFLUENZA A


Prashant Saxena, Shashank Shrishrima, Inamul Hasan Madar

Abstract


Objective: To evaluate the variation of neuraminidase (NA) protein from various H1N1 strain for drug designing.

Methods: In this study we have used 12 sequences of NA protein from various countries, retrieved from UniprotKB database. We have performed structural analysis, antigenic and glycosylation site prediction between NA proteins of influenza A strains.

Results: Antigenic variants in sequence of NA H1N1 strain from Italy were found to be unique and were not present in any other NA H1N1. Strains from Italy and Thailand were found to be distantly related while others are closely related. We observed the maximum similarity from position 84 to 448 using disorder prediction analysis of different strains. Sequences from 1 to 83 and 449 to 469 showed the maximum dissimilarity among the NA Proteins.

Conclusion: This study focuses on the regions of sequence similarity and dissimilarity of NA in H1N1 strains from different countries. The results in this paper are based on currently available sequences for NA of H1N1 strains and bioinformatic tools. Our study will help in understanding of the regions of high variability due to mutations and conserved domains that can be potential targets for drug development.


Keywords


Influenza, Neuraminidase, Glycosylation, Vaccine

| PDF | HTML |

References


Pizzorno A, Bouhy X, Abed Y, Boivin G. Generation and characterization of recombinant pandemic influenza A (H1N1) viruses resistant to neuraminidase inhibitors. J Infect Dis 2011;203(1):25-31.

Girard MP, Tam JS, Assossou OM, Kieny MP. The 2009 A (H1N1) influenza virus pandemic: a review. Vaccine 2010;28(31):4895-902.

Roll U, Yaari R, Katriel G, Barnea O, Stone L, Mendelson E, et al. Onset of a pandemic: characterizing the initial phase of the swine flu (H1N1) epidemic in Israel. BMC Infect Dis 2011;11:1-13.

Ahn I, Son HS. Comparative study of the nucleotide bias between the novel H1N1 and H5N1 subtypes of influenza A viruses using bioinformatics techniques. J Microbiol Biotechnol 2010;20(1):63-70.

van der Vries E, Collins PJ, Vachieri SG, Xiong X, Liu J, Walker PA, et al. H1N1 2009 pandemic influenza virus: resistance of the I223R neuraminidase mutant explained by kinetic and structural analysis. PLoS Pathog 2012;8(9):1-8.

Pizzorno A, Bouhy X, Abed Y, Boivin G. Generation and characterization of recombinant pandemic influenza A (H1N1) viruses resistant to neuraminidase inhibitors. J Infect Dis 2011;203(1):25-31.

van der Vries E, Veldhuis Kroeze EJ, Stittelaar KJ, Linster M, Van der Linden A, Schrauwen EJ, et al. Multidrug resistant 2009 A/H1N1 influenza clinical isolate with a neuraminidase I223R mutation retains its virulence and transmissibility in ferrets. PLoS Pathog 2011;7(9):e1002-276.

Boutet E, Lieberherr D, Tognolli M, Schneider M, Bairoch A. Uni Prot KB/Swiss-Prot. Methods Mol Biol 2007;406:89-112.

Apweiler R, Bateman A, Martin MJ, O'Donovan C, Magrane M, Alam-Faruque Y, et al. Activities at the universal protein resource (Uni Prot). Nucleic Acids Res 2014;42:191-8.

Edgar RC, Batzoglou S. Multiple sequence alignment. Curr Opin Struct Biol 2006;16(3):368-73.

Notredame C, Higgins DG, Heringa J. T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Biol 2000;302(1):205-17.

Rice P, Longden I, Bleasby A. EMBOSS: the european molecular biology open software suite. Trends Genet 2000;16(6):276-7.

Julenius K, Johansen M, Zhang Y, Brunak S, Gupta R. Prediction of Glycosylation Sites in Proteins. Bioinformatics for Glycobiology and Glycomics; 2010

Bhasin M, Raghava GP. Prediction of CTL epitopes using QM, SVM and ANN techniques. Vaccine 2004;22(23-24):195-204.

Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, andmaximum parsimony methods. Mol Biol Evol 2011;28(10):2731-9.

Li X, Romero P, Rani M, Dunker AK, Obradovic Z. Predicting protein disorder for N-, C-, and Internal Regions. Genome Inform Ser Workshop Genome Inform 1999;10:30-40.

Romero P, Obradovic Z, Li X, Garner EC, Brown CJ, Dunker AK. Sequence complexity of disordered protein. Proteins 2001;42(1):38-48.

Romero, Obradovic, Dunker K. Sequence data analysis for long disordered regions prediction in the calcineurin family. Genome Inform Ser Workshop Genome Inform 1997;8:110-24.

Matrosovich MN, Matrosovich TY, Gray T, Roberts NA, Klenk HD. Neuraminidase is important for the initiation of influenza virus infection in human airway epithelium. J Virol 2004;78(22):12665-7.

Air GM, Laver WG. The neuraminidase of influenza virus. Proteins 1989;6(4):341-56.




About this article

Title

A GLOBAL COMPARISON AND ANALYSIS OF NEURAMINIDASE H1N1 STRAIN OF INFLUENZA A

Keywords

Influenza, Neuraminidase, Glycosylation, Vaccine

Date

24-02-2015

Additional Links

Manuscript Submission

Journal

International Journal of Pharmacy and Pharmaceutical Sciences
Vol 7, Issue 4, 2015 Page: 259-263

Online ISSN

0975-1491

Statistics

172 Views | 33 Downloads

Authors & Affiliations

Prashant Saxena
University of Nebraska Medical Center
United States

Shashank Shrishrima
University of Nebraska Medical Center
United States

Inamul Hasan Madar
Bioinformatics Bishop Heber College
India


Article Tools



Refbacks

  • There are currently no refbacks.