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Original Article 
JVS. 2018; 4(1): 44-56


PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016

Dalia mohammed omar, nermeen ahmed marden, lamiaa mohamed gaafar, elham atta el-ebiary, khalid El-Dougdoug, badawi othman, abd elsattar arafa, hussein ali hussein.

Abstract
Background: Avian Influenza Viruses (AIV) circulating in Egypt since 2006 causing serious economic losses in poultry sector and also human hazard although vaccination programs applied and other control measures.
Objectives: The present study was designed for detection, isolation, identification and characterization of Avian Influenza Viruses (AIV) circulating among poultry in 2016 to determine its suitability to be used in vaccine quality control in Egypt.
Methods: The newly isolated virus was identified and subtyped antigenically by serological test as Haemagglutination inhibition test (HI) using standard AI antisera for H5 antigen and genetically by RT-PCR using specific primer for H5 gene and it was confirmed to be H5N1 and grouped according to the year of isolation as 2016 isolate strain.
Results: According to the phylogenetic analysis it fills into the classical group of Egyptian AI viruses subclade 2.2.1.2 which is dominant in Egypt since 2012 till now. As a consequence the virus was identified as HPAI according to the Intravenous Pathogenicity Index (IVPI) score (2.1). On the other hand, the strain identity to some AI vaccine strains was determined for further characterization.
Conclusion: our experiments in this recent isolation of avian influenza (AI) viruses cleared that the evolution of H5N1 HPAI viruses in Egypt continues to occur in poultry farms. The subclade 2.2.1.2 of classical HPAI viruses has been the dominant cluster till now. So, continuous monitoring of the circulating viruses is important for better selection of viruses in vaccine studies and to understand the evolution of viruses overtime.

Key words: Keywords: HPAI, H5N1, HA test, RT-PCR


 
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How to Cite this Article
Pubmed Style

omar Dm, marden na, gaafar lm, el-ebiary ea, El-Dougdoug k, othman b, arafa ae, hussein ha. PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. JVS. 2018; 4(1): 44-56.


Web Style

omar Dm, marden na, gaafar lm, el-ebiary ea, El-Dougdoug k, othman b, arafa ae, hussein ha. PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. http://www.j-virol-sci.com/?mno=302734 [Access: March 19, 2019].


AMA (American Medical Association) Style

omar Dm, marden na, gaafar lm, el-ebiary ea, El-Dougdoug k, othman b, arafa ae, hussein ha. PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. JVS. 2018; 4(1): 44-56.



Vancouver/ICMJE Style

omar Dm, marden na, gaafar lm, el-ebiary ea, El-Dougdoug k, othman b, arafa ae, hussein ha. PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. JVS. (2018), [cited March 19, 2019]; 4(1): 44-56.



Harvard Style

omar, D. m., marden, . n. a., gaafar, . l. m., el-ebiary, . e. a., El-Dougdoug, . k., othman, . b., arafa, . a. e. & hussein, . h. a. (2018) PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. JVS, 4 (1), 44-56.



Turabian Style

omar, Dalia mohammed, nermeen ahmed marden, lamiaa mohamed gaafar, elham atta el-ebiary, khalid El-Dougdoug, badawi othman, abd elsattar arafa, and hussein ali hussein. 2018. PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. Journal of Virological Sciences, 4 (1), 44-56.



Chicago Style

omar, Dalia mohammed, nermeen ahmed marden, lamiaa mohamed gaafar, elham atta el-ebiary, khalid El-Dougdoug, badawi othman, abd elsattar arafa, and hussein ali hussein. "PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016." Journal of Virological Sciences 4 (2018), 44-56.



MLA (The Modern Language Association) Style

omar, Dalia mohammed, nermeen ahmed marden, lamiaa mohamed gaafar, elham atta el-ebiary, khalid El-Dougdoug, badawi othman, abd elsattar arafa, and hussein ali hussein. "PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016." Journal of Virological Sciences 4.1 (2018), 44-56. Print.



APA (American Psychological Association) Style

omar, D. m., marden, . n. a., gaafar, . l. m., el-ebiary, . e. a., El-Dougdoug, . k., othman, . b., arafa, . a. e. & hussein, . h. a. (2018) PHYLOGENETIC ANALYSIS AND PATHOGENECITY ASSESSMENT OF LOCALLY ISOLATED STRAIN OF HPAI VIRUS IN EGYPT IN 2016. Journal of Virological Sciences, 4 (1), 44-56.



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