Effect of live poultry market interventions on influenza A(H7N9) virus, Guangdong, China

Emerging Infectious Diseases

Volumn 22, Issue 12, 2016, Pages 2104-2112

  Wu, Jie ^a   Lu, Jing ^a   Faria, Nuno R ^b   Zeng, Xianqiao ^a   Song, Yingchao ^a   Zou, Lirong ^a   Yi, Lina ^a   Liang, Lijun ^a   Ni, Hanzhong ^a   Kang, Min ^a   Zhang, Xin ^a   Huang, Guofeng ^a   Zhong, Haojie ^a   Bowden, Thomas A ^b   Raghwani, Jayna ^b   He, Jianfeng ^a   He, Xiang ^a   Lin, Jinyan ^a,b   Koopmans, Marion ^c   Pybus, Oliver G ^b   Ke, Changwen ^a   more..

^a GUANGZHOU CENTER FOR DISEASE CONTROL AND PREVENTION   (China)

^b UNIVERSITY OF OXFORD   (United Kingdom)

^c ERASMUS MEDICAL CENTER   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; EPIDEMIC; GENETIC VARIABILITY; GENOME ANALYSIS; GEOGRAPHIC DISTRIBUTION; INFLUENZA A VIRUS (H7N9); MARKET; NEXT GENERATION SEQUENCING; NONHUMAN; PHYLOGENY; POPULATION DENSITY; POULTRY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ALIGNMENT; SPATIAL ANALYSIS; VIRUS TRANSMISSION; ANIMAL; BAYES THEOREM; CHINA; CLASSIFICATION; GENETIC VARIATION; GENETICS; GENOTYPE; HEALTH SURVEY; HUMAN; INCIDENCE; INFLUENZA; ISOLATION AND PURIFICATION; SPATIOTEMPORAL ANALYSIS; TRANSMISSION; VIROLOGY;

VIRUS RNA;

ANIMALS; BAYES THEOREM; CHINA; DISEASE OUTBREAKS; GENETIC VARIATION; GENOTYPE; HUMANS; INCIDENCE; INFLUENZA A VIRUS, H7N9 SUBTYPE; INFLUENZA, HUMAN; PHYLOGENY; POPULATION SURVEILLANCE; POULTRY; RNA, VIRAL; SPATIO-TEMPORAL ANALYSIS;

EID: 84995902555     PISSN: 10806040     EISSN: 10806059     Source Type: Journal    
DOI: 10.3201/eid2212.160450     Document Type: Article

References (25)

1. Gao R, Cao B, Hu Y, Feng Z, Wang D, Hu W, et al. Human infection with a novel avian-origin influenza A (H7N9) virus. N Engl J Med. 2013;368:1888–97. http://dx.doi.org/10.1056/NEJMoa1304459
2. Li Q, Zhou L, Zhou M, Chen Z, Li F, Wu H, et al. Epidemiology of human infections with avian influenza A(H7N9) virus in China. N Engl J Med. 2014;370:520–32. http://dx.doi.org/10.1056/NEJMoa1304617
3. Yu H, Wu JT, Cowling BJ, Liao Q, Fang VJ, Zhou S, et al. Effect of closure of live poultry markets on poultry-to-person transmission of avian influenza A H7N9 virus: an ecological study. Lancet. 2014;383:541–8. http://dx.doi.org/10.1016/S0140-6736(13)61904-2
4. Kang M, He J, Song T, Rutherford S, Wu J, Lin J, et al. Environmental sampling for avian influenza A(H7N9) in live-poultry markets in Guangdong, China. PLoS One. 2015;10:e0126335. http://dx.doi.org/10.1371/journal.pone.0126335
5. Yuan J, Lau EH, Li K, Leung YH, Yang Z, Xie C, et al. Effect of live poultry market closure on avian influenza A(H7N9) virus activity in Guangzhou, China, 2014. Emerg Infect Dis. 2015;21:1784–93. http://dx.doi.org/10.3201/eid2110.150623
6. Wu P, Jiang H, Wu JT, Chen E, He J, Zhou H, et al. Poultry market closures and human infection with influenza A(H7N9) virus, China, 2013-14. Emerg Infect Dis. 2014;20:1891–4. http://dx.doi.org/10.3201/eid2011.140556
7. Russell CA, Jones TC, Barr IG, Cox NJ, Garten RJ, Gregory V, et al. Influenza vaccine strain selection and recent studies on the global migration of seasonal influenza viruses. Vaccine. 2008;26(Suppl 4):D31–4. http://dx.doi.org/10.1016/j.vaccine.2008.07.078
8. Ke C, Lu J, Wu J, Guan D, Zou L, Song T, et al. Circulation of reassortant influenza A(H7N9) viruses in poultry and humans, Guangdong Province, China, 2013. Emerg Infect Dis. 2014;20:2034–40. http://dx.doi.org/10.3201/eid2012.140765
9. Lu J, Wu J, Zeng X, Guan D, Zou L, Yi L, et al. Continuing reassortment leads to the genetic diversity of influenza virus H7N9 in Guangdong, China. J Virol. 2014;88:8297–306. http://dx.doi.org/10.1128/JVI.00630-14
10. Wu J, Lau EH, Xing Q, Zou L, Zhang H, Yen HL, et al. Seasonality of avian influenza A(H7N9) activity and risk of human A(H7N9) infections from live poultry markets. J Infect. 2015;71:690–3. http://dx.doi.org/10.1016/j.jinf.2015.08.007
11. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, et al. Clustal W and Clustal X version 2.0. Bioinformatics. 2007;23:2947–8. http://dx.doi.org/10.1093/bioinformatics/btm404
12. Larsson A. AliView: a fast and lightweight alignment viewer and editor for large datasets. Bioinformatics. 2014;30:3276–8. http://dx.doi.org/10.1093/bioinformatics/btu531
13. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics. 2006;22:2688–90. http://dx.doi.org/10.1093/bioinformatics/btl446
14. Rodríguez F, Oliver JL, Marín A, Medina JR. The general stochastic model of nucleotide substitution. J Theor Biol. 1990;142:485–501. http://dx.doi.org/10.1016/S0022-5193(05)80104-3
15. Rambaut A, Lam TT, Carvalho LM, Pybus OG. Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen). [Epub 2016 Apr 10]. Virus Evolution. 2016;2:vew007. http://dx.doi.org/10.1093/ve/vew007
16. Shapiro B, Rambaut A, Drummond AJ. Choosing appropriate substitution models for the phylogenetic analysis of protein-coding sequences. Mol Biol Evol. 2006;23:7–9. http://dx.doi.org/10.1093/molbev/msj021
17. Drummond AJ, Ho SY, Phillips MJ, Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 2006;4:e88. http://dx.doi.org/10.1371/journal.pbio.0040088
18. Gill MS, Lemey P, Faria NR, Rambaut A, Shapiro B, Suchard MA. Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Mol Biol Evol. 2013;30:713–24. http://dx.doi.org/10.1093/molbev/mss265
19. Lemey P, Rambaut A, Bedford T, Faria N, Bielejec F, Baele G, et al. Unifying viral genetics and human transportation data to predict the global transmission dynamics of human influenza H3N2. PLoS Pathog. 2014;10:e1003932. http://dx.doi.org/10.1371/journal.ppat.1003932
20. Edwards CJ, Suchard MA, Lemey P, Welch JJ, Barnes I, Fulton TL, et al. Ancient hybridization and an Irish origin for the modern polar bear matriline. Curr Biol. 2011;21:1251–8. http://dx.doi.org/10.1016/j.cub.2011.05.058
21. Trock SC, Gaeta M, Gonzalez A, Pederson JC, Senne DA. Evaluation of routine depopulation, cleaning, and disinfection procedures in the live bird markets, New York. Avian Dis. 2008;52:160–2. http://dx.doi.org/10.1637/7980-040607-Reg
22. Lam TT, Zhou B, Wang J, Chai Y, Shen Y, Chen X, et al. Dissemination, divergence and establishment of H7N9 influenza viruses in China. Nature. 2015;522:102–5. http://dx.doi.org/10.1038/nature14348
23. Cui L, Liu D, Shi W, Pan J, Qi X, Li X, et al. Dynamic reassortments and genetic heterogeneity of the human-infecting influenza A (H7N9) virus. Nat Commun. 2014;5:3142. http://dx.doi.org/10.1038/ncomms4142
24. Peiris JS, Cowling BJ, Wu JT, Feng L, Guan Y, Yu H, et al. Interventions to reduce zoonotic and pandemic risks from avian influenza in Asia. Lancet Infect Dis. 2016;16:252–8. http://dx.doi.org/10.1016/S1473-3099(15)00502-2
25. Yi L, Guan D, Kang M, Wu J, Zeng X, Lu J, et al. Family clusters of avian influenza A H7N9 virus infection in Guangdong Province, China. J Clin Microbiol. 2015;53:22–8. http://dx.doi.org/10.1128/JCM.02322-14