publication . Article . Other literature type . 2013

Novel phylogenetic algorithm to monitor human tropism in Egyptian H5N1-HPAIV reveals evolution toward efficient human-to-human transmission.

Henry L. Niman; Veljko Veljkovic; Sanja Glisic; Nevena Veljkovic; Ursula Dietrich; Vladimir Perovic; Dušan Tošić; Claude P. Muller;
Open Access English
  • Published: 26 Apr 2013 Journal: PLoS ONE (issn: 1932-6203, Copyright policy)
  • Publisher: Public Library of Science (PLoS)
  • Country: Serbia
Abstract
Years of endemic infections with highly pathogenic avian influenza (HPAI) A subtype H5N1 virus in poultry and high numbers of infections in humans provide ample opportunity in Egypt for H5N1-HPAIV to develop pandemic potential. In an effort to better understand the viral determinants that facilitate human infections of the Egyptian H5N1-HPAIVvirus, we developed a new phylogenetic algorithm based on a new distance measure derived from the informational spectrum method (ISM). This new approach, which describes functional aspects of the evolution of the hemagglutinin subunit 1 (HA1), revealed a growing group G2 of H5N1-HPAIV in Egypt after 2009 that acquired new in...
Subjects
Medical Subject Headings: virus diseasesviruses
free text keywords: Medicine, R, Science, Q, Research Article, Biology, Computational Biology, Microbiology, Virology, Viral Evolution, Viral Transmission and Infection, Virulence Factors and Mechanisms, Epidemiology, Molecular Epidemiology, Infectious Diseases, Viral Diseases, Zoonoses, Veterinary Science, Veterinary Diseases, Veterinary Virology, General Biochemistry, Genetics and Molecular Biology, General Agricultural and Biological Sciences, General Medicine, Influenza A virus subtype H5N1, medicine.disease_cause, Phylogenetic tree, Hemagglutinin (influenza), biology.protein, Tissue tropism, Phylogenetics, Pandemic, Tropism, Algorithm
Funded by
MESTD| Application of the EIIP/ISM bioinformatics platform in discovery of novel therapeutic targets and potential therapeutic molecules
Project
  • Funder: Ministry of Education, Science and Technological Development of Republic of Serbia (MESTD)
  • Project Code: 173001
  • Funding stream: Basic Research (BR or ON)
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46 references, page 1 of 4

1. Bahgat MM, Kutkat MA, Nasraa MH, Mostafa A, Webby R, et al. (2009) Characterization of an avian influenza virus H5N1 Egyptian isolate. J Virol Methods 59: 244-250.

2. Aly MM, Arafa A, Hassan MK (2008) Epidemiological findings of outbreaks of disease caused by highly pathogenic H5N1 avian influenza virus in poultry in Egypt during 2006. Avian Dis 52: 269-277.

3. World Health Organization (WHO) website. Influenza at the Human-Animal Interface (HAI). Available: http://www.who.int/influenza/human_animal_ interface/en/. Accessed 2012 Nov 3.

4. Epstein S (2012) T-cell immune responses and asymptomatic H5N1 influenza infection. J Infect Dis 205: 4-6.

5. Veljkovic V, Veljkovic N, Muller CP, Mu¨ ller S, Glisic S, et al. (2009) Characterization of conserved properties of hemagglutinin of H5N1 and human influenza viruses: possible consequences for therapy and infection control. BMC Struct Biol 9: 21. [OpenAIRE]

6. Veljkovic V, Niman HL, Glisic S, Veljkovic N, Perovic V, et al. (2009) Identification of hemagglutinin structural domain and polymorphisms which may modulate swine H1N1 interactions with human receptor. BMC Struct Biol 9: 62.

7. Veljkovic N, Glisic S, Prljic J, Perovic V, Botta M, et al. (2008) Discovery of new therapeutic targets by the informational spectrum method. Curr Protein Pept Sci 9: 493-506. [OpenAIRE]

8. Veljkovic V, Veljkovic N, Este JA, Huther A, Dietrich U (2007) Application of the EIIP/ISM bioinformatics concept in development of new drugs. Curr Med Chem 14: 441-453. [OpenAIRE]

9. National Center for Biotechnology Information (NCBI) database. Available: http://ncbi.nlm.nih.gov/protein. Accessed 2012 Nov 15.

10. Global Initiative on Sharing All Influenza Data (GISAID) database Available: http://platform.gisaid.org.Accessed 2012 Nov 15.

11. Veljkovic V (1980) Theoretical approach to preselection of cancerogens and chemical carcinogenesis. Gordon & Breach, New York.

12. Veljkovic V, Slavic I (1972) Simple general-model pseudopotential. Phys Rev Lett 29: 105-106. [OpenAIRE]

13. Veljkovic V (1973) The dependence of the Fermi energy on the atomic number. Phys Lett 45A: 41-42.

14. Veljkovic V, Cosic I, Dimitrijevic B, Lalovic D (1983) Is it possible to analyze DNA and protein sequence by the method of digital signal processing? IEEE Trans BME-32: 337-340.

15. David WM (2001) Bioinformatics: sequence and genome analysis. Cold Spring Harbor Laboratory Press. 6.

46 references, page 1 of 4
Abstract
Years of endemic infections with highly pathogenic avian influenza (HPAI) A subtype H5N1 virus in poultry and high numbers of infections in humans provide ample opportunity in Egypt for H5N1-HPAIV to develop pandemic potential. In an effort to better understand the viral determinants that facilitate human infections of the Egyptian H5N1-HPAIVvirus, we developed a new phylogenetic algorithm based on a new distance measure derived from the informational spectrum method (ISM). This new approach, which describes functional aspects of the evolution of the hemagglutinin subunit 1 (HA1), revealed a growing group G2 of H5N1-HPAIV in Egypt after 2009 that acquired new in...
Subjects
Medical Subject Headings: virus diseasesviruses
free text keywords: Medicine, R, Science, Q, Research Article, Biology, Computational Biology, Microbiology, Virology, Viral Evolution, Viral Transmission and Infection, Virulence Factors and Mechanisms, Epidemiology, Molecular Epidemiology, Infectious Diseases, Viral Diseases, Zoonoses, Veterinary Science, Veterinary Diseases, Veterinary Virology, General Biochemistry, Genetics and Molecular Biology, General Agricultural and Biological Sciences, General Medicine, Influenza A virus subtype H5N1, medicine.disease_cause, Phylogenetic tree, Hemagglutinin (influenza), biology.protein, Tissue tropism, Phylogenetics, Pandemic, Tropism, Algorithm
Funded by
MESTD| Application of the EIIP/ISM bioinformatics platform in discovery of novel therapeutic targets and potential therapeutic molecules
Project
  • Funder: Ministry of Education, Science and Technological Development of Republic of Serbia (MESTD)
  • Project Code: 173001
  • Funding stream: Basic Research (BR or ON)
Download fromView all 5 versions
PLoS ONE
Article . 2013
PLoS ONE
Article . 2013
Provider: Crossref
PLoS ONE
Article
Provider: UnpayWall
46 references, page 1 of 4

1. Bahgat MM, Kutkat MA, Nasraa MH, Mostafa A, Webby R, et al. (2009) Characterization of an avian influenza virus H5N1 Egyptian isolate. J Virol Methods 59: 244-250.

2. Aly MM, Arafa A, Hassan MK (2008) Epidemiological findings of outbreaks of disease caused by highly pathogenic H5N1 avian influenza virus in poultry in Egypt during 2006. Avian Dis 52: 269-277.

3. World Health Organization (WHO) website. Influenza at the Human-Animal Interface (HAI). Available: http://www.who.int/influenza/human_animal_ interface/en/. Accessed 2012 Nov 3.

4. Epstein S (2012) T-cell immune responses and asymptomatic H5N1 influenza infection. J Infect Dis 205: 4-6.

5. Veljkovic V, Veljkovic N, Muller CP, Mu¨ ller S, Glisic S, et al. (2009) Characterization of conserved properties of hemagglutinin of H5N1 and human influenza viruses: possible consequences for therapy and infection control. BMC Struct Biol 9: 21. [OpenAIRE]

6. Veljkovic V, Niman HL, Glisic S, Veljkovic N, Perovic V, et al. (2009) Identification of hemagglutinin structural domain and polymorphisms which may modulate swine H1N1 interactions with human receptor. BMC Struct Biol 9: 62.

7. Veljkovic N, Glisic S, Prljic J, Perovic V, Botta M, et al. (2008) Discovery of new therapeutic targets by the informational spectrum method. Curr Protein Pept Sci 9: 493-506. [OpenAIRE]

8. Veljkovic V, Veljkovic N, Este JA, Huther A, Dietrich U (2007) Application of the EIIP/ISM bioinformatics concept in development of new drugs. Curr Med Chem 14: 441-453. [OpenAIRE]

9. National Center for Biotechnology Information (NCBI) database. Available: http://ncbi.nlm.nih.gov/protein. Accessed 2012 Nov 15.

10. Global Initiative on Sharing All Influenza Data (GISAID) database Available: http://platform.gisaid.org.Accessed 2012 Nov 15.

11. Veljkovic V (1980) Theoretical approach to preselection of cancerogens and chemical carcinogenesis. Gordon & Breach, New York.

12. Veljkovic V, Slavic I (1972) Simple general-model pseudopotential. Phys Rev Lett 29: 105-106. [OpenAIRE]

13. Veljkovic V (1973) The dependence of the Fermi energy on the atomic number. Phys Lett 45A: 41-42.

14. Veljkovic V, Cosic I, Dimitrijevic B, Lalovic D (1983) Is it possible to analyze DNA and protein sequence by the method of digital signal processing? IEEE Trans BME-32: 337-340.

15. David WM (2001) Bioinformatics: sequence and genome analysis. Cold Spring Harbor Laboratory Press. 6.

46 references, page 1 of 4
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