References
1. Nguyen-Van-Tam JS, Hampson AW. The
epidemiology and clinical impact of pandemic influenza. Vaccine .
2003;21(16):1762-1768.
2. Rimmelzwaan G, Kuiken T, Van
Amerongen G, Bestebroer T, Fouchier RAM, Osterhaus ADM. A primate model
to study the pathogenesis of influenza A (H5N1) virus infection.Avian diseases . 2003;47(s3):931-933.
3. Fouchier RA, Munster V, Wallensten
A, et al. Characterization of a novel influenza A virus hemagglutinin
subtype (H16) obtained from black-headed gulls. Journal of
virology . 2005;79(5):2814-2822.
4. Organization WH. Influenza-like
illness in the United Staites and Mexico. http://www who
int/csr/don/2009_04_24/en/index html . 2009;
5. Holmes EC. The phylogeography of
human viruses. Molecular ecology . 2004;13(4):745-756.
6. Tamura K, Peterson D, Peterson N,
Stecher G, Nei M, Kumar S. MEGA5: molecular evolutionary genetics
analysis using maximum likelihood, evolutionary distance, and maximum
parsimony methods. Molecular biology and evolution .
2011;28(10):2731-2739.
7. Drummond AJ, Rambaut A. BEAST:
Bayesian evolutionary analysis by sampling trees. BMC evolutionary
biology . 2007;7(1):1-8.
8. Drummond AJ, Rambaut A, Shapiro B,
Pybus OG. Bayesian coalescent inference of past population dynamics from
molecular sequences. Molecular biology and evolution .
2005;22(5):1185-1192.
9. Jin Y, Yu D, Ren H, et al.
Phylogeography of Avian influenza A H9N2 in China. BMC genomics .
2014;15(1):1-10.
10. Suchard MA, Lemey P, Baele G,
Ayres DL, Drummond AJ, Rambaut A. Bayesian phylogenetic and phylodynamic
data integration using BEAST 1.10. Virus evolution .
2018;4(1):vey016.
11. Bielejec F, Rambaut A, Suchard
MA, Lemey P. SPREAD: spatial phylogenetic reconstruction of evolutionary
dynamics. Bioinformatics . 2011;27(20):2910-2912.
12. Pond SLK, Frost SD. Datamonkey:
rapid detection of selective pressure on individual sites of codon
alignments. Bioinformatics . 2005;21(10):2531-2533.
13. Kosakovsky Pond SL, Frost SD. Not
so different after all: a comparison of methods for detecting amino acid
sites under selection. Molecular biology and evolution .
2005;22(5):1208-1222.
14. Lycett S, McLeish NJ, Robertson
C, et al. Origin and fate of A/H1N1 influenza in Scotland during 2009.The Journal of general virology . 2012;93(Pt 6):1253.
15. Ma Y, Liu K, Yin Y, et al. The
phylodynamics of seasonal influenza A/H1N1pdm virus in China between
2009 and 2019. Frontiers in microbiology . 2020;11:735.
16. Abdel-Ghafar A, Chotpitayasunondh
T, Gao Z, et al. Writing committee of the second world health
organization consultation on clinical aspects of human infection with
avian influenza A (H5N1) virus. Update on avian influenza A (H5N1) virus
infection in humans. N Engl J Med . 2008;358(3):261-273.
17. Lemey P, Suchard M, Rambaut A.
Reconstructing the initial global spread of a human influenza pandemic:
a Bayesian spatial-temporal model for the global spread of H1N1pdm.PLoS currents . 2009;1
18. Jones S, Nelson-Sathi S, Wang Y,
et al. Evolutionary, genetic, structural characterization and its
functional implications for the influenza A (H1N1) infection outbreak in
India from 2009 to 2017. Scientific reports . 2019;9(1):1-10.
19. BAGHERI LK. Hajj and Swine Flu
Pandemic (H1N1, 2009): What Is Expected and What Should Be Done? 2010;
20. Naguib MM, Arafa A-SA, El-Kady
MF, et al. Evolutionary trajectories and diagnostic challenges of
potentially zoonotic avian influenza viruses H5N1 and H9N2
co-circulating in Egypt. Infection, Genetics and Evolution .
2015;34:278-291.
21. Zehender G, Pariani E, Piralla A,
et al. Reconstruction of the evolutionary dynamics of the A (H1N1) pdm09
influenza virus in Italy during the pandemic and post-pandemic phases.PLoS One . 2012;7(11):e47517.
22. Barrero P, Viegas M, Valinotto L,
Mistchenko A. Genetic and phylogenetic analyses of influenza A H1N1pdm
virus in Buenos Aires, Argentina. Journal of virology .
2011;85(2):1058-1066.
23. Smith GJ, Vijaykrishna D, Bahl J,
et al. Origins and evolutionary genomics of the 2009 swine-origin H1N1
influenza A epidemic. Nature . 2009;459(7250):1122-1125.
24. Xu J, Christman MC, Donis RO, Lu
G. Evolutionary dynamics of influenza A nucleoprotein (NP) lineages
revealed by large-scale sequence analyses. Infection, Genetics and
Evolution . 2011;11(8):2125-2132.