Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Oncology Letters
      • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Biomedical Reports
      • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • Information for Authors
    • Information for Reviewers
    • Information for Librarians
    • Information for Advertisers
    • Conferences
  • Language Editing
Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • For Authors
    • For Reviewers
    • For Librarians
    • For Advertisers
    • Conferences
  • Language Editing
Login Register Submit
  • This site uses cookies
  • You can change your cookie settings at any time by following the instructions in our Cookie Policy. To find out more, you may read our Privacy Policy.

    I agree
Search articles by DOI, keyword, author or affiliation
Search
Advanced Search
presentation
Experimental and Therapeutic Medicine
Join Editorial Board Propose a Special Issue
Print ISSN: 1792-0981 Online ISSN: 1792-1015
Journal Cover
October-2016 Volume 12 Issue 4

Full Size Image

Sign up for eToc alerts
Recommend to Library

Journals

International Journal of Molecular Medicine

International Journal of Molecular Medicine

International Journal of Molecular Medicine is an international journal devoted to molecular mechanisms of human disease.

International Journal of Oncology

International Journal of Oncology

International Journal of Oncology is an international journal devoted to oncology research and cancer treatment.

Molecular Medicine Reports

Molecular Medicine Reports

Covers molecular medicine topics such as pharmacology, pathology, genetics, neuroscience, infectious diseases, molecular cardiology, and molecular surgery.

Oncology Reports

Oncology Reports

Oncology Reports is an international journal devoted to fundamental and applied research in Oncology.

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine is an international journal devoted to laboratory and clinical medicine.

Oncology Letters

Oncology Letters

Oncology Letters is an international journal devoted to Experimental and Clinical Oncology.

Biomedical Reports

Biomedical Reports

Explores a wide range of biological and medical fields, including pharmacology, genetics, microbiology, neuroscience, and molecular cardiology.

Molecular and Clinical Oncology

Molecular and Clinical Oncology

International journal addressing all aspects of oncology research, from tumorigenesis and oncogenes to chemotherapy and metastasis.

World Academy of Sciences Journal

World Academy of Sciences Journal

Multidisciplinary open-access journal spanning biochemistry, genetics, neuroscience, environmental health, and synthetic biology.

International Journal of Functional Nutrition

International Journal of Functional Nutrition

Open-access journal combining biochemistry, pharmacology, immunology, and genetics to advance health through functional nutrition.

International Journal of Epigenetics

International Journal of Epigenetics

Publishes open-access research on using epigenetics to advance understanding and treatment of human disease.

Medicine International

Medicine International

An International Open Access Journal Devoted to General Medicine.

Journal Cover
October-2016 Volume 12 Issue 4

Full Size Image

Sign up for eToc alerts
Recommend to Library

  • Article
  • Citations
    • Cite This Article
    • Download Citation
    • Create Citation Alert
    • Remove Citation Alert
    • Cited By
  • Similar Articles
    • Related Articles (in Spandidos Publications)
    • Similar Articles (Google Scholar)
    • Similar Articles (PubMed)
  • Download PDF
  • Download XML
  • View XML
Article Open Access

Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus

  • Authors:
    • Xiangyu Wang
    • Qi Sun
    • Zhonghua Ye
    • Ying Hua
    • Na Shao
    • Yanli Du
    • Qiwei Zhang
    • Chengsong Wan
  • View Affiliations / Copyright

    Affiliations: Department of Microbiology, Guangdong Provincial Key Laboratory of Tropical Disease Research, School of Public Health, Southern Medical University, Guangzhou, Guangdong 510515, P.R. China
    Copyright: © Wang et al. This is an open access article distributed under the terms of Creative Commons Attribution License.
  • Pages: 2439-2446
    |
    Published online on: August 31, 2016
       https://doi.org/10.3892/etm.2016.3636
  • Expand metrics +
Metrics: Total Views: 0 (Spandidos Publications: | PMC Statistics: )
Metrics: Total PDF Downloads: 0 (Spandidos Publications: | PMC Statistics: )
Cited By (CrossRef): 0 citations Loading Articles...

This article is mentioned in:



Abstract

An avian-origin influenza H7N9 virus epidemic occurred in China in 2013‑2014, in which >422 infected people suffered from pneumonia, respiratory distress syndrome and septic shock. H7N9 viruses belong to the H7 subtype of avian‑origin influenza viruses (AIV-H7). Hemagglutinin (HA) is a vital membrane protein of AIV that has an important role in host recognition and infection. The epitopes of HA are significant determinants of the regularity of epidemic and viral mutation and recombination mechanisms. The present study aimed to predict the conserved B‑cell epitopes of AIV‑H7 HA using a bioinformatics approach, including the three most effective epitope prediction softwares available online: Artificial Neural Network based B‑cell Epitope Prediction (ABCpred), B‑cell Epitope Prediction (BepiPred) and Linear B‑cell Epitope Prediction (LBtope). A total of 24 strains of Euro‑Asiatic AIV‑H7 that had been associated with a serious poultry pandemic or had infected humans in the past 30 years were selected to identify the conserved regions of HA. Sequences were obtained from the National Center for Biotechnology Information and Global Initiative on Sharing Avian Influenza Data databases. Using a combination of software prediction and sequence comparisons, the conserved epitopes of AIV‑H7 were predicted and clarified. A total of five conserved epitopes [amino acids (aa) 37‑52, 131‑142, 215‑234, 465‑484 and 487‑505] with a suitable length, high antigenicity and minimal variation were predicted and confirmed. Each obtained a score of >0.80 in ABCpred, 60% in LBtope and a level of 0.35 in Bepipred. In addition, a representative amino acid change (glutamine235‑to‑leucine235) in the HA protein of the 2013 AIV‑H7N9 was discovered. The strategy adopted in the present study may have profound implications on the rapid diagnosis and control of infectious disease caused by H7N9 viruses, as well as by other virulent viruses, such as the Ebola virus.
View Figures

Figure 1

Figure 2

Figure 3

Figure 4

Figure 5

View References

1 

Klimov A, Prösch S, Schäfer J and Bucher D: Subtype H7 influenza viruses: Comparative antigenic and molecular analysis of the HA-, M-, and NS-genes. Arch Virol. 122:143–161. 1992. View Article : Google Scholar : PubMed/NCBI

2 

Fouchier RA, Schneeberger PM, Rozendaal FW, Broekman JM, Kemink SA, Munster V, Kuiken T, Rimmelzwaan GF, Schutten M, Van Doornum GJ, et al: Avian influenza A virus (H7N7) associated with human conjunctivitis and a fatal case of acute respiratory distress syndrome. Proc Natl Acad Sci USA. 101:1356–1361. 2004. View Article : Google Scholar : PubMed/NCBI

3 

World Health Organization, . Human infection with avian influenza A (H7N9) virus - update. http://www.who.int/csr/don/2014_01_20/en/May 1–2014

4 

Sun Y, Shen Y and Lu H: Discovery process, clinical characteristics, and treatment of patients infected with avian influenza virus (H7N9) in Shanghai. Chin Med J (Engl). 127:185–186. 2014.PubMed/NCBI

5 

Li YJ, Jiao XA, Pan ZM, Sun L, Wang CB, Zhang SH, Sun QY and Liu XF: Development and characterization of monoclonal antibodies against H7 hemagglutinin of avian influenza virus. Xi Bao Yu Fen Zi Mian Yi Xue Za Zhi. 23:953–955. 2007.(In Chinese). PubMed/NCBI

6 

Zhao B, Zhang X, Zhu W, Teng Z, Yu X, Gao Y, Wu D, Pei E, Yuan Z, Yang L, et al: Novel avian influenza A(H7N9) virus in tree sparrow, Shanghai, China, 2013. Emerg Infect Dis. 20:850–853. 2014. View Article : Google Scholar : PubMed/NCBI

7 

Russell RJ, Kerry PS, Stevens DJ, Steinhauer DA, Martin SR, Gamblin SJ and Skehel JJ: Structure of influenza hemagglutinin in complex with an inhibitor of membrane fusion. Proc Natl Acad Sci USA. 105:17736–17741. 2008. View Article : Google Scholar : PubMed/NCBI

8 

Wang Y, Dai Z, Cheng H, Liu Z, Pan Z, Deng W, Gao T, Li X, Yao Y, Ren J and Xue Y: Towards a better understanding of the novel avian-origin H7N9 influenza A virus in China. Sci Rep. 3:23182013.PubMed/NCBI

9 

Barlow DJ, Edwards MS and Thornton JM: Continuous and discontinuous protein antigenic determinants. Nature. 322:747–748. 1986. View Article : Google Scholar : PubMed/NCBI

10 

Evans MC: Recent advances in immunoinformatics: Application of in silico tools to drug development. Curr Opin Drug Discov Devel. 11:233–241. 2008.PubMed/NCBI

11 

Van Regenmortel MH: Synthetic peptides versus natural antigens in immunoassays. Ann Biol Clin (Paris). 51:39–41. 1993.PubMed/NCBI

12 

Saha S and Raghava GP: Prediction of continuous B-cell epitopes in an antigen using recurrent neural network. Proteins. 65:40–48. 2006. View Article : Google Scholar : PubMed/NCBI

13 

Zhu WF, Gao RB, Wang DY, Yang L, Zhu Y and Shu YL: A review of H7 subtype avain influenza virus. Bing Du Xue Bao. 29:245–249. 2013.(In Chinese). PubMed/NCBI

14 

Larsen JE, Lund O and Nielsen M: Improved method for predicting linear B-cell epitopes. Immunome Res. 2:22006. View Article : Google Scholar : PubMed/NCBI

15 

Parker JM, Guo D and Hodges RS: New hydrophilicity scale derived from high-performance liquid chromatography peptide retention data: Correlation of predicted surface residues with antigenicity and X-ray-derived accessible sites. Biochemistry. 25:5425–5432. 1986. View Article : Google Scholar : PubMed/NCBI

16 

Singh H, Ansari HR and Raghava GP: Improved method for linear B-cell epitope prediction using antigen's primary sequence. PLoS One. 8:e622162013. View Article : Google Scholar : PubMed/NCBI

17 

Xu R, de Vries RP, Zhu X, Nycholat CM, McBride R, Yu W, Paulson JC and Wilson IA: Preferential recognition of avian-like receptors in human influenza A H7N9 viruses. Science. 342:1230–1235. 2013. View Article : Google Scholar : PubMed/NCBI

18 

Krchnák V, Mach O and Malý A: Computer prediction of B-cell determinants from protein amino acid sequences based on incidence of beta turns. Methods Enzymol. 178:586–611. 1989. View Article : Google Scholar : PubMed/NCBI

19 

Pellequer JL, Westhof E and Van Regenmortel MH: Correlation between the location of antigenic sites and the prediction of turns in proteins. Immunol Lett. 36:83–99. 1993. View Article : Google Scholar : PubMed/NCBI

20 

Dudek NL, Perlmutter P, Aguilar MI, Croft NP and Purcell AW: Epitope discovery and their use in peptide based vaccines. Curr Pharm Des. 16:3149–3157. 2010. View Article : Google Scholar : PubMed/NCBI

21 

Bryson CJ, Jones TD and Baker MP: Prediction of immunogenicity of therapeutic proteins: Validity of computational tools. BioDrugs. 24:1–8. 2010. View Article : Google Scholar : PubMed/NCBI

22 

De Groot AS, Sbai H, Aubin CS, McMurry J and Martin W: Immuno-informatics: Mining genomes for vaccine components. Immunol Cell Biol. 80:255–269. 2002. View Article : Google Scholar : PubMed/NCBI

23 

Frikha-Gargouri O, Gdoura R, Znazen A, Gargouri B, Gargouri J, Rebai A and Hammami A: Evaluation of an in silico predicted specific and immunogenic antigen from the OmcB protein for the serodiagnosis of Chlamydia trachomatis infections. BMC Microbiol. 8:2172008. View Article : Google Scholar : PubMed/NCBI

24 

Jones MS and Carter JM: Prediction of B-cell epitopes in listeriolysin O, a cholesterol dependent cytolysin secreted by listeria monocytogenes. Adv Bioinformatics. 2014:8716762014. View Article : Google Scholar : PubMed/NCBI

25 

Maksimov P, Zerweck J, Maksimov A, Hotop A, Gross U, Pleyer U, Spekker K, Däubener W, Werdermann S, Niederstrasser O, et al: Peptide microarray analysis of in silico-predicted epitopes for serological diagnosis of Toxoplasma gondii infection in humans. Clin Vaccine Immunol. 19:865–874. 2012. View Article : Google Scholar : PubMed/NCBI

26 

Saha S, Bhasin M and Raghava GP: Bcipep: A database of B-cell epitopes. BMC Genomics. 6:792005. View Article : Google Scholar : PubMed/NCBI

27 

Karplus PA and Schulz GE: Prediction of chain flexibility in proteins. Naturwissenschaften. 72:212–213. 1985. View Article : Google Scholar

28 

Emini EA, Hughes JV, Perlow DS and Boger J: Induction of hepatitis A virus-neutralizing antibody by a virus-specific synthetic peptide. J Virol. 55:836–839. 1985.PubMed/NCBI

29 

Costa JG, Faccendini PL, Sferco SJ, Lagier CM and Marcipar IS: Evaluation and comparison of the ability of online available prediction programs to predict true linear B-cell epitopes. Protein Pept Lett. 20:724–730. 2013. View Article : Google Scholar : PubMed/NCBI

30 

Reimer U: Prediction of linear B-cell epitopes. Methods Mol Biol. 524:335–344. 2009. View Article : Google Scholar : PubMed/NCBI

31 

Kageyama T, Fujisaki S, Takashita E, Xu H, Yamada S, Uchida Y, Neumann G, Saito T, Kawaoka Y and Tashiro M: Genetic analysis of novel avian A (H7N9) influenza viruses isolated from patients in China, February to April 2013. Euro Surveill. 18:204532013.PubMed/NCBI

32 

Liu D, Shi W, Shi Y, Wang D, Xiao H, Li W, Bi Y, Wu Y, Li X, Yan J, et al: Origin and diversity of novel avian influenza A H7N9 viruses causing human infection: Phylogenetic, structural, and coalescent analyses. Lancet. 381:1926–1932. 2013. View Article : Google Scholar : PubMed/NCBI

Related Articles

  • Abstract
  • View
  • Download
  • Twitter
Copy and paste a formatted citation
Spandidos Publications style
Wang X, Sun Q, Ye Z, Hua Y, Shao N, Du Y, Zhang Q and Wan C: Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus. Exp Ther Med 12: 2439-2446, 2016.
APA
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y. ... Wan, C. (2016). Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus. Experimental and Therapeutic Medicine, 12, 2439-2446. https://doi.org/10.3892/etm.2016.3636
MLA
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y., Zhang, Q., Wan, C."Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus". Experimental and Therapeutic Medicine 12.4 (2016): 2439-2446.
Chicago
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y., Zhang, Q., Wan, C."Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus". Experimental and Therapeutic Medicine 12, no. 4 (2016): 2439-2446. https://doi.org/10.3892/etm.2016.3636
Copy and paste a formatted citation
x
Spandidos Publications style
Wang X, Sun Q, Ye Z, Hua Y, Shao N, Du Y, Zhang Q and Wan C: Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus. Exp Ther Med 12: 2439-2446, 2016.
APA
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y. ... Wan, C. (2016). Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus. Experimental and Therapeutic Medicine, 12, 2439-2446. https://doi.org/10.3892/etm.2016.3636
MLA
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y., Zhang, Q., Wan, C."Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus". Experimental and Therapeutic Medicine 12.4 (2016): 2439-2446.
Chicago
Wang, X., Sun, Q., Ye, Z., Hua, Y., Shao, N., Du, Y., Zhang, Q., Wan, C."Computational approach for predicting the conserved B-cell epitopes of hemagglutinin H7 subtype influenza virus". Experimental and Therapeutic Medicine 12, no. 4 (2016): 2439-2446. https://doi.org/10.3892/etm.2016.3636
Follow us
  • Twitter
  • LinkedIn
  • Facebook
About
  • Spandidos Publications
  • Careers
  • Cookie Policy
  • Privacy Policy
How can we help?
  • Help
  • Live Chat
  • Contact
  • Email to our Support Team