Abstract
Twenty-four avian influenza viruses were collected from poultry farms in three different governorates in Egypt during the years 2006–2009 and genetically characterized. All the isolates were confirmed to be type A and subtype H5 influenza virus by chromatographic strip test and hemagglutination inhibition assay. The sequence and phylogenetic data revealed that all Egyptian isolates cluster together and belong to subclade 2.2.1 of the H5N1 virus of Eurasian origin. Within the clade, Egyptian isolates were classified into three major groups (A, B, and C) based on genetic similarity and chronology of the isolation. The majority of the recent isolates belonged to subgroup A. Interestingly, four strains, which were isolated from the same farm with two of the samples collected on the same day, were located in separate subgroups. In addition, the difference in topology between HA and NS phylogenetic trees, which indicates possible difference in dynamics of genetic evolution in two genes, was observed. Genetic characterization data of H5N1 isolates obtained from farms with different vaccination histories indicate the vaccines currently being used in Egypt do not provide adequate level of protection. Our study provides additional evidence for the need for updated vaccine and warrants continuous monitoring of H5N1 influenza virus in Egypt.
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E.C. Claas, A.D. Osterhaus, R.V. Beek, J. Cde Jong, G.F. Rimmelzwaan, D.A. Senne, S. Krauss, K.F. Shortridge, R.G. Webster, Lancet 351, 472–477 (1998)
K.H. Chan, S.Y. Lam, P. Puthavathana, T.D. Nguyen, H.T. Long, C.M. Pang, K.M. Chan, C.Y. Cheung, W.H. Seto, J.S. Peiris, J. Clin. Virol. 38, 169–171 (2007)
K.S. Li, Y. Guan, J. Wang, G.J. Smith, K.M. Xu, L. Duan, A.P. Rahardjo, P. Puthavathana, C. Buranathai, T.D. Nguyen, A.T. Estoepangestie, A. Chaisingh, P. Auewarakul, H.T. Long, N.T. Hanh, R.J. Webby, L.L. Poon, H. Chen, K.F. Shortridge, K.Y. Yuen, R.G. Webster, J.S. Peiris, Nature 430, 209–213 (2004)
H. Chen, G. Deng, Z. Li, G. Tian, Y. Li, P. Jiao, L. Zhang, Z. Liu, R.G. Webster, K. Yu, Proc. Natl. Acad. Sci. USA 101(28), 10452–10457 (2004)
Center for Disease Control and Prevention (CDC), Navigation for the CDC Avian Flu Web site, May 17 (2006)
H. Samaha, HPAI Technical Meeting; 27–29 June 2007, Rome, Italy. http://www.fao.org/avianflu/en/conferences/june (2007)
A. Arafa, D.L. Suarez, M.K. Hassan, M.M. Aly, Avian Dis. in press (2009)
M.M. Aly, A. Arafa, M.K. Hassan, Avian Dis. 52, 269–277 (2008)
D.L. Suarez, C.W. Lee, D.E. Swayne, Dev. Biol. (Basel) 124, 117–124 (2006)
C.W. Lee, D.A. Senne, D.L. Suarez, J. Virol. 78, 8372–8381 (2004)
A. Gambaryan, A. Tuzikov, G. Pazynina, N. Bovin, A. Balish, A. Klimov, Virology 344, 432–438 (2006)
L. Widjaja, N. Ilyushina, R.G. Webster, R.J. Webby, Virology 350, 137–145 (2006)
L.A. Balish, C.T. Davis, M.D. Saad, N. El-Sayed, H. Esmat, J.A. Tjaden, K.C. Earhart, L.E. Ahmed, M. Abd El-Halem, A.M. Ali, S.A. Nassif, E.A. El-Ebiary, M. Taha, M.M. Aly, A. Arafa, E. O’Neill, X. Xiyan, N.J. Cox, R.O. Donis, A.I. Klimov, Avian Dis. 54, 329–334 (2010)
A.A. Ahmed, S.A.S. Shany, S.R. Fereidouni, B.T.M. Eid, M.F. El-Kady, E. Starick, T. Harder, G.M. Keil, Arch. Virol. 154(9), 1559–1562 (2009)
C.W. Beard, Serologic procedures, in A Laboratory Manual for the Isolation and Identification of Avian Pathogens, 3rd edn., ed. by H.G. Purchase, L.H. Arab, C.H. Domerumuth, J.E. Pearson (American Association of avian Pathologist, Kennett square, PA, 1989), pp. 192–200
E. Spackman, D.A. Senne, T.J. Myers, L.L. Bulaga, L.P. Garber, M.L. Perdue, K. Lohman, L.T. Daum, D.L. Suarez, J. Clin. Microbiol. 40, 3256–3260 (2002)
P. Villegas, H.G. Purchase, Calculation of geometric mean titers, in A Laboratory Manual for the Isolation and Identification of Avian Pathogens, ed. by H.G. Purchase, L.H. Arab, C.H. Domerumuth, J.E. Pearson (American Association of avian Pathologists, Kennett. Square, PA, 1989), pp. 121–123
WHO/OIE/FAO H5N1 Evolution Working Group, Influ. Other Respir. Viruses 3, 59–62 (2009)
S.A. Shany, M.V.Sc. Thesis, Faculty of Veterinary Medicine, Beni-Suef University, 2009
A.J. Caton, G.G. Brownlee, J.M. Yewdell, W. Gerhard, Cell 31, 417–427 (1982)
D.C. Wiley, I.A. Wilson, J.J. Skehel, Nature 289, 373–378 (1981)
S. Zohari, G. Peter, T. Peter, C. Gyorgy, B. Caroline, B. Sandor, B. Mikael, Virus Genes 36, 117–125 (2008)
M. Escorcia, L. Vázquez, S.T. Méndez, A.R. Ropón, E. Lucio, G.M. Nava, Virol. J. 5, 15 (2008)
G.L. Ada, P.D. Jones, Curr. Top. Microbiol. Immunol. 128, 1–54 (1986)
R.B. Couch, J.A. Kasel, Annu. Rev. Microbiol. 37, 529–549 (1983)
C. Villarreal-Chavez, E. Rivera-Cruz, Avian Dis. 47, 1002–1005 (2003)
R.G. Webster, R.J. Webby, E. Hoffmann, J. Rodenberg, M. Kumar, H.J. Chu, P. Seiler, S. Krauss, T. Songserm, Virology 351, 303–311 (2006)
Aknowledgments
Our appreciation goes to Mrs. Riham Youssef for her help in shipping the samples. Thanks are extended to Alexander Rodriguez-Palacios for the help with the statistical analysis, Megan Strother for technical assistance and Mrs. Jody Whittier at MCIC for sequencing. This study was supported in part by the Partnership & Ownership Initiative, the Ministry of Higher Education and Scientific Research Egypt and funds appropriated to the Ohio Agricultural Research and Development Center, The Ohio State University.
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Eladl, A.E.H., El-Azm, K.I.A., Ismail, A.E.N. et al. Genetic characterization of highly pathogenic H5N1 avian influenza viruses isolated from poultry farms in Egypt. Virus Genes 43, 272–280 (2011). https://doi.org/10.1007/s11262-011-0633-5
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DOI: https://doi.org/10.1007/s11262-011-0633-5