Genetic adaptation of influenza a viruses in domestic animals and their potential role in interspecies transmission: A literature review

EcoHealth

Volumn 13, Issue 1, 2016, Pages 171-198

  Munoz, Olga ^a   De Nardi, Marco ^a,i   Van Der Meulen, Karen ^b   Van Reeth, Kristien ^b   Koopmans, Marion ^c,d   Harris, Kate ^e   Von Dobschuetz, Sophie ^f,g   Freidl, Gudrun ^c,d   Meijer, Adam ^c   Breed, Andrew ^e   Hill, Andrew ^e   Kosmider, Rowena ^e   Banks, Jill ^e   Stärk, Katharina D C ^f   Wieland, Barbara ^f   Stevens, Kim ^f   Van Der Werf, Sylvie ^h   Enouf, Vincent ^h   Dauphin, Gwenaelle ^g   Dundon, William ^a   Cattoli, Giovanni ^a   Capua, Ilaria ^a   more..

^a ISTITUTO ZOOPROFILATTICO SPERIMENTALE DELLE VENEZIE   (Italy)

^b GHENT UNIVERSITY   (Belgium)

^c NATIONAL INSTITUTE FOR PUBLIC HEALTH AND THE ENVIRONMENT   (Netherlands)

^d ERASMUS MEDICAL CENTER   (Netherlands)

^e Animal Health and Veterinary Agency (AHVLA)   (United Kingdom)

^f ROYAL VETERINARY COLLEGE   (United Kingdom)

^g FOOD AND AGRICULTURE ORGANIZATION OF THE UNITED NATIONS   (Italy)

^h INSTITUT PASTEUR   (France)

ⁱ SAFOSO   (Switzerland)

Author keywords

Adaptation; Dogs; Horses; Influenza; Poultry; Swine

Indexed keywords

ANIMAL; DOMESTIC ANIMAL; EPIDEMIC; GENETICS; HUMAN; INFLUENZA; INFLUENZA A VIRUS; ORTHOMYXOVIRUS INFECTION; PATHOGENICITY; TRANSMISSION; VETERINARY; VIROLOGY;

ANIMALS; ANIMALS, DOMESTIC; DISEASE OUTBREAKS; HUMANS; INFLUENZA A VIRUS; INFLUENZA, HUMAN; ORTHOMYXOVIRIDAE INFECTIONS;

EID: 84921888947     PISSN: 16129202     EISSN: 16129210     Source Type: Journal    
DOI: 10.1007/s10393-014-1004-1     Document Type: Review

References (215)

1. Ali A, Daniels JB, Zhang Y, Rodriguez-Palacios A, Hayes-Ozello K, Mathes L, Lee C-W (2011) Pandemic and seasonal human influenza virus infections in domestic cats: prevalence, association with respiratory disease, and seasonality patterns. Journal of Clinical Microbiology 49:4101-4105. doi:10.1128/JCM.05415-11
2. Alizadeh E, Kheiri M, Bashar R, Tabatabaeian M, Hosseini SM (2009) Avian Influenza (H9N2) among poultry workers in Iran. Iranian Journal of Microbiology 1:3-6
3. Amirsalehy H, Nili H, Mohammadi A (2012) Can dogs carry the global pandemic candidate avian influenza virus H9N2? Australian Veterinary Journal 90:341-345. doi:10.1111/j.1751-0813.2012.00973.x
4. Anderson TC, Crawford PC, Dubovi EJ, Gibbs EPJ, Hernandez JA (2013) Prevalence of and exposure factors for seropositivity to H3N8 canine influenza virus in dogs with influenza-like illness in the United States. Journal of the American Veterinary Medical Association 242:209-216. doi:10.2460/javma.242.2.209
5. Barbour EK, Sagherian VK, Sagherian NK, Dankar SK, Jaber LS, Usayran NN, Farran MT (2006) Avian influenza outbreak in poultry in the Lebanon and transmission to neighbouring farmers and swine. Veterinaria Italiana 42:77-85
6. Bateman AC, Busch MG, Karasin AI, Bovin N, Olsen CW (2008) Amino acid 226 in the hemagglutinin of H4N6 influenza virus determines binding affinity for a2, 6-linked sialic acid and infectivity levels in primary swine and human respiratory epithelial cells. Journal of Virology 82:8204-8209
7. Bateman AC, Karamanska R, Busch MG, Dell A, Olsen CW, Haslam SM (2010) Glycan analysis and influenza A virus infection of primary swine respiratory epithelial cells. Journal of Biological Chemistry 285:34016-34026
8. Belser JA, Blixt O, Chen LM, Pappas C, Maines TR, Van Hoeven N, Donis R, Busch J, McBride R, Paulson JC (2008) Contemporary North American influenza H7 viruses possess human receptor specificity: Implications for virus transmissibility. Proceedings of the National Academy of Sciences of the United States of America of the USA 105:7558
9. Belser JA, Gustin KM, Pearce MB, Maines TR, Zeng H, Pappas C, Sun X, Carney PJ, Villanueva JM, Stevens J, Katz JM, Tumpey TM (2013) Pathogenesis and transmission of avian influenza A (H7N9) virus in ferrets and mice. Nature 501:556-559. doi:10.1038/nature12391
10. Bialas KM, Desmet EA, Takimoto T (2012) Specific residues in the 2009 H1N1 swine-origin influenza matrix protein influence virion morphology and efficiency of viral spread in vitro. PLoS One 7:e50595
11. Blumenkrantz D, Roberts KL, Shelton H, Lycett S, Barclay WS (2013) The short stalk length of highly pathogenic avian influenza H5N1 virus neuraminidase limits transmission of pandemic H1N1 virus in ferrets. Journal of Virology 87:10539-10551. doi:10.1128/JVI.00967-13
12. Bouvier NM, Palese P (2008) The biology of influenza viruses. Vaccine 26:D49-D53
13. Bussey KA, Bousse TL, Desmet EA, Kim B, Takimoto T (2010) PB2 residue 271 plays a key role in enhanced polymerase activity of influenza A viruses in mammalian host cells. Journal of Virology 84:4395-4406
14. Byrd-Leotis L, Liu R, Bradley KC, Lasanajak Y, Cummings SF, Song X, Heimburg-Molinaro J, Galloway SE, Culhane MR, Smith DF, Steinhauer DA, Cummings RD (2014) Shotgun glycomics of pig lung identifies natural endogenous receptors for influenza viruses. Proceedings of the National Academy of Sciences of the USA 111:E2241-E2250. doi:10.1073/pnas.132316 2111
15. Campbell PJ, Danzy S, Kyriakis CS, Deymier MJ, Lowen AC, Steel J (2014a) The M segment of the 2009 pandemic influenza virus confers increased neuraminidase activity, filamentous morphology, and efficient contact transmissibility to A/Puerto Rico/8/1934-based reassortant viruses. Journal of Virology 88:3802-3814. doi:10.1128/JVI.03607-13
16. Campbell PJ, Kyriakis CS, Marshall N, Suppiah S, Seladi-Schulman J, Danzy S, Lowen AC, Steel J (2014b) Residue 41 of the Eurasian avian-like swine influenza a virus matrix protein modulates virion filament length and efficiency of contact transmission. Journal of Virology 88:7569-7577. doi:10.1128/JVI.00119-14
17. Capua I, Alexander DJ (2004) Avian influenza: recent developments. Avian Pathology: Journal of the W.V.P.A 33:393-404. doi:10.1080/03079450410001724085
18. Cauldwell AV, Long JS, Moncorgé O, Barclay WS (2014) Viral determinants of influenza A virus host range. The Journal of General Virology 95:1193-1210. doi:10.1099/vir.0.062836-0
19. Centers for Disease Prevention and Control (CDC) (2014) Influenza A (H3N2) Variant Virus Swine/Variant Influenza (Flu). http://www.cdc.gov/flu/swineflu/h3n2v-cases.htm. Accessed on 05 Dec 2014
20. Chan RWY, Karamanska R, Van Poucke S, Van Reeth K, Chan IWW, Chan MCW, Dell A, Peiris JSM, Haslam SM, Guan Y, Nicholls JM (2013) Infection of swine ex vivo tissues with avian viruses including H7N9 and correlation with glycomic analysis. Influenza and Other Respiratory Viruses 7:1269-1282. doi:10.1111/irv.12144
21. Chandrasekaran A, Srinivasan A, Raman R, Viswanathan K, Raguram S, Tumpey TM, Sasisekharan V, Sasisekharan R (2008) Glycan topology determines human adaptation of avian H5N1 virus hemagglutinin. Nature Biotechnology 26:107-113
22. Chang C, New A, Taylor J, Chiang H (1976) Influenza virus isolations from dogs during a human epidemic in Taiwan. International Journal of Zoonoses 3:61-64
23. Chen H, Li Y, Li Z, Shi J, Shinya K, Deng G, Qi Q, Tian G, Fan S, Zhao H (2006) Properties and dissemination of H5N1 viruses isolated during an influenza outbreak in migratory waterfowl in western China. Journal of Virology 80:5976-5983
24. Chen H, Yuan H, Gao R, Zhang J, Wang D, Xiong Y, Fan G, Yang F, Li X, Zhou J, Zou S, Yang L, Chen T, Dong L, Bo H, Zhao X, Zhang Y, Lan Y, Bai T, Dong J, Li Q, Wang S, Zhang Y, Li H, Gong T, Shi Y, Ni X, Li J, Zhou J, Fan J, Wu J, Zhou X, Hu M, Wan J, Yang W, Li D, Wu G, Feng Z, Gao GF, Wang Y, Jin Q, Liu M, Shu Y (2014) Clinical and epidemiological characteristics of a fatal case of avian influenza A H10N8 virus infection: a descriptive study. Lancet 383:714-721. doi:10.1016/S0140-6736(14)60111-2
25. Chen LM, Davis CT, Zhou H, Cox NJ, Donis RO (2008) Genetic compatibility and virulence of reassortants derived from contemporary avian H5N1 and human H3N2 influenza A viruses. PLoS Pathogens 4:e1000072
26. Chen L, Rivailler P, Hossain J, Carney P, Balish A, Perry I, Davis CT, Garten R, Shu B, Xu X (2011) Receptor specificity of subtype H1 influenza A viruses isolated from swine and humans in the United States. Virology 412:401-410
27. Chen Y, Zhong G, Wang G, Deng G, Li Y, Shi J, Zhang Z, Guan Y, Jiang Y, Bu Z, Kawaoka Y, Chen H (2010) Dogs are highly susceptible to H5N1 avian influenza virus. Virology 405:15-19. doi:10.1016/j.virol.2010.05.024
28. Chou Y-Y, Albrecht RA, Pica N, Lowen AC, Richt JA, García-Sastre A, Palese P, Hai R (2011) The M segment of the 2009 new pandemic H1N1 influenza virus is critical for its high transmission efficiency in the guinea pig model. Journal of virology 85:11235-11241. doi:10.1128/JVI.05794-11
29. Cilloni F, Toffan A, Giannecchini S, Clausi V, Azzi A, Capua I, Terregino C (2010) Increased pathogenicity and shedding in chickens of a wild bird-origin low pathogenicity avian influenza virus of the H7N3 subtype following multiple in vivo passages in quail and turkey. Avian Diseases 54:555-557
30. Conenello GM, Tisoncik JR, Rosenzweig E, Varga ZT, Palese P, Katze MG (2011) A single N66S mutation in the PB1-F2 protein of influenza A virus increases virulence by inhibiting the early interferon response in vivo. Journal of Virology 85:652-662
31. Conenello GM, Zamarin D, Perrone LA, Tumpey T, Palese P (2007) A single mutation in the PB1-F2 of H5N1 (HK/97) and 1918 influenza A viruses contributes to increased virulence. PLoS Pathogens 3:e141
32. Connor RJ, Kawaoka Y, Webster RG, Paulson JC (1994) Receptor specificity in human, avian, and equine H2 and H3 influenza virus isolates. Virology 205:17-23
33. Costa T, Chaves AJ, Valle R, Darji A, van Riel D, Kuiken T, MajóN, Ramis A (2012) Distribution patterns of influenza virus receptors and viral attachment patterns in the respiratory and intestinal tracts of seven avian species. Veterinary Research 43:28
34. Cong YL, Pu J, Liu QF, Wang S, Zhang GZ, Zhang XL, Fan WX, Brown EG, Liu JH (2007) Antigenic and genetic characterization of H9N2 swine influenza viruses in China. The Journal of General Virology 88:2035-2041. doi:10.1099/vir.0.82783-0
35. Cotter CR, Jin H, Chen Z (2014) A single amino acid in the stalk region of the H1N1pdm influenza virus HA protein affects viral fusion, stability and infectivity. PLoS Pathogens 10:e1003831. doi:10.1371/journal.ppat.1003831
36. Crawford P, Dubovi EJ, Castleman WL, Stephenson I, Gibbs E, Chen L, Smith C, Hill RC, Ferro P, Pompey J (2005) Transmission of equine influenza virus to dogs. Science 310:482-485
37. Crusat M, Liu J, Palma AS, Childs RA, Liu Y, Wharton SA, Lin YP, Coombs PJ, Martin SR, Matrosovich M, Chen Z, Stevens DJ, Hien VM, Thanh TT, Nhu LNT, Nguyet LA, Ha DQ, van Doorn HR, Hien TT, Conradt HS, Kiso M, Gamblin SJ, Chai W, Skehel JJ, Hay AJ, Farrar J, de Jong MD, Feizi T (2013) Changes in the hemagglutinin of H5N1 viruses during human infection: influence on receptor binding. Virology 447:326-337. doi:10.1016/j.virol.2013.08.010
38. Daly JM, Blunden AS, MacRae S, Miller J, Bowman SJ, Kolodziejek J, Nowotny N, Smith KC (2008) Transmission of equine influenza virus to English foxhounds. Emerging Infectious Diseases 14:461
39. De Nardi M, Hill A, von Dobschuetz S, Munoz O, Kosmider R, Dewe T, Harris K, Freidl G, Stevens K, van der Meulen K, Stäerk KDC, Breed A, Meijer A, Koopmans M, Havelaar A, van derWerf S, Banks J, Wieland B, van Reeth K, Dauphin G, Capua I and the FLURISK consortium (2013) Development of a risk assessment methodological framework for potentially pandemic influenza strains (FLURISK). EFSA supporting publication 2014:EN-571. http://www.efsa.europa.eu/publications. Accessed 18 June 2014
40. De Vleeschauwer A, Atanasova K, Van Borm S, Van Den Berg T, Rasmussen TB, Uttenthal A °, Van Reeth K (2009) Comparative pathogenesis of an avian H5N2 and a swine H1N1 influenza virus in pigs. PLoS One 4:e6662
41. De Vleeschauwer A, Van Poucke S, Braeckmans D, Van Doorsselaere J, Van Reeth K (2009) Efficient transmission of swineadapted but not wholly avian influenza viruses among pigs and from pigs to ferrets. Journal of Infectious Diseases 200:1884-1892
42. De Vries RP, Zhu X, McBride R, Rigter A, Hanson A, Zhong G, Hatta M, Xu R, Yu W, Kawaoka Y, de Haan CAM, Wilson IA, Paulson JC (2014) Hemagglutinin receptor specificity and structural analyses of respiratory droplet-transmissible H5N1 viruses. Journal of Virology 88:768-773. doi:10.1128/JVI.02690-13
43. De Wit E, Munster VJ, Van Riel D, Beyer WEP, Rimmelzwaan GF, Kuiken T, Osterhaus ADME, Fouchier RAM (2010) Molecular determinants of adaptation of highly pathogenic avian influenza H7N7 viruses to efficient replication in the human host. Journal of Virology 84:1597-1606
44. Dortmans JCFM, Dekkers J, Wickramasinghe INA, Verheije MH, Rottier PJM, van Kuppeveld FJM, de Vries E, de Haan CAM (2013) Adaptation of novel H7N9 influenza A virus to human receptors. Scientific Reports 3:3058. doi:10.1038/srep03058
45. Driskell EA, Jones CA, Berghaus RD, Stallknecht DE, Howerth EW, Tompkins SM (2013) Domestic cats are susceptible to infection with low pathogenic avian influenza viruses from shorebirds. Veterinary Pathology 50:39-45. doi:10.1177/0300985812452578
46. Dubovi EJ (2010) Canine influenza. Veterinary Clinics of North America: Small Animal Practice 40:1063-1071. doi:10.1016/j.cvsm.2010.07.005
47. Dundon WG (2012) Variability among the neuraminidase, nonstructural 1 and PB1-F2 proteins in the influenza A virus genome. Virus Genes 44:363-373
48. Dundon WG, Milani A, Cattoli G, Capua I (2006) Progressive truncation of the non-structural 1 gene of H7N1 avian influenza viruses following extensive circulation in poultry. Virus Research 119:171-176
49. Fereidouni S, Munoz O, Von Dobschuetz S, De Nardi M (2014) Influenza Virus Infection of Marine Mammals. EcoHealthz. doi:10.1007/s10393-014-0968-1
50. Fiorentini L, Taddei R, Moreno A, Gelmetti D, Barbieri I, De Marco MA, Tosi G, Cordioli P, Massi P (2011) Influenza A pandemic (H1N1) 2009 virus outbreak in a cat colony in Italy. Zoonoses and Public Health 58:573-581. doi:10.1111/j.1863-2378.2011.01406.x
51. Freidl GS, Meijer A, de Bruin E, de Nardi M, Munoz O, Capua I, Breed AC, Harris K, Hill A, Kosmider R, Banks J, von Dobschuetz S, Stark K, Wieland B, Stevens K, van der Werf S, Enouf V, van der Meulen K, Van Reeth K, Dauphin G, Koopmans M (2014) Influenza at the animal-human interface: a review of the literature for virological evidence of human infection with swine or avian influenza viruses other than A(H5N1). Eurosurveillance 19:pii:20793
52. Galloway SE, Reed ML, Russell CJ, Steinhauer DA (2013) Influenza HA subtypes demonstrate divergent phenotypes for cleavage activation and pH of fusion: implications for host range and adaptation. PLoS Pathogens 9:e1003151. doi:10.1371/journal.ppat.1003151
53. Gambaryan AS, Karasin AI, Tuzikov AB, Chinarev AA, Pazynina GV, Bovin NV, Matrosovich MN, Olsen CW, Klimov AI (2005) Receptor-binding properties of swine influenza viruses isolated and propagated in MDCK cells. Virus Research 114:15-22
54. Gao Y, Zhang Y, Shinya K, Deng G, Jiang Y, Li Z, Guan Y, Tian G, Li Y, Shi J, Liu L, Zeng X, Bu Z, Xia X, Kawaoka Y, Chen H (2009) Identification of amino acids in HA and PB2 critical for the transmission of H5N1 avian influenza viruses in a mammalian host. PLoS Pathogens 5:e1000709
55. Garten RJ, Davis CT, Russell CA, Shu B, Lindstrom S, Balish A, Sessions WM, Xu X, Skepner E, Deyde V, Okomo-Adhiambo M, Gubareva L, Barnes J, Smith CB, Emery SL, Hillman MJ, Rivailler P, Smagala J, de Graaf M, Burke DF, Fouchier RA, Pappas C, Alpuche-Aranda CM, López-Gatell H, Olivera H, López I, Myers CA, Faix D, Blair PJ, Yu C, Keene KM, Dotson PDJ, Boxrud D, Sambol AR, Abid SH, St George K, Bannerman T, Moore AL, Stringer DJ, Blevins P, Demmler-Harrison GJ, Ginsberg M, Kriner P, Waterman S, Smole S, Guevara HF, Belongia EA, Clark PA, Beatrice ST, Donis R, Katz J, Finelli L, Bridges CB, Shaw M, Jernigan DB, Uyeki TM, Smith DJ, Klimov AI, Cox NJ (2009) Antigenic and genetic characteristics of swine-origin 2009 A (H1N1) influenza viruses circulating in humans. Science 325:197-201
56. Giannecchini S, Clausi V, Di Trani L, Falcone E, Terregino C, Toffan A, Cilloni F, Matrosovich M, Gambaryan AS, Bovin NV (2010) Molecular adaptation of an H7N3 wild duck influenza virus following experimental multiple passages in quail and turkey. Virology 408:167-173
57. Gibbs E, Anderson TC (2010) Equine and canine influenza: a review of current events. Animal Health Research Reviews 11:43-51
58. Giese M, Harder TC, Teifke JP, Klopfleisch R, Breithaupt A, Mettenleiter TC, Vahlenkamp TW (2008) Experimental infection and natural contact exposure of dogs with avian influenza virus (H5N1). Emerging Infectious Diseases 14:308-310. doi:10.3201/eid1402.070864
59. Gilbert M, Chaitaweesub P, Parakamawongsa T, Premashthira S, Tiensin T, Kalpravidh W, Wagner H, Slingenbergh J (2006) Free-grazing ducks and highly pathogenic avian influenza, Thailand. Emerging Infectious Diseases 12:227-234
60. Gilbert M, Xiao X, Chaitaweesub P, Kalpravidh W, Premashthira S, Boles S, Slingenbergh J (2007) Avian influenza, domestic ducks and rice agriculture in Thailand. Agriculture, Ecosystems & Environment 119:409-415
61. Gillim-Ross L, Santos C, Chen Z, Aspelund A, Yang CF, Ye D, Jin H, Kemble G, Subbarao K (2008) Avian influenza H6 viruses productively infect and cause illness in mice and ferrets. Journal of Virology 82:10854-10863
62. Gonzalez G, Marshall JF, Morrell J, Robb D, McCauley JW, Perez DR, Parrish CR, Murcia PR (2014) Infection and pathogenesis of canine, equine, and human influenza viruses in canine tracheas. Journal of Virology 88:9208-9219. doi:10.1128/JVI.00887-14
63. Guan Y, Shortridge KF, Krauss S, Webster RG (1999) Molecular characterization of H9N2 influenza viruses: Were they the donors of the ‘‘‘internal’’’ genes of H5N1 viruses in Hong Kong ? Proceedings of the National Academy of Sciences of the USA 96:9363-9367
64. Hai-xia F, Yuan-yuan L, Qian-qian S, Zong-shuai L, Feng-xia Z, Yan-li Z, Shi-jin J, Zhi-jing X (2014) Interspecies transmission of canine influenza virus H5N2 to cats and chickens by close contact with experimentally infected dogs. Veterinary Microbiology 170:414-417. doi:10.1016/j.vetmic.2014.02.040
65. Haiyan L, Kangzhen Y, Huanliang Y, Xiaoguang X, Junyan C, Pu Z, Yingzuo B, Hualan C (2004) Isolation and characterization of H5N1 and H9N2 influenza viruses from pigs in China. Chinese Journal of Preventive Veterinary Medicine 26:1-6
66. Hatta M, Hatta Y, Kim JH, Watanabe S, Shinya K, Nguyen T, Lien PS, Le QM, Kawaoka Y (2007) Growth of H5N1 influenza A viruses in the upper respiratory tracts of mice. PLoS Pathogens 3:e133
67. Hannant D, Mumford JA (1996) Equine influenza. In: Virus infections of vertebrates, virus infections of equines, Studdert MJ, Horzinek MC (editors), Amsterdam: Elsevier, pp 285-293
68. He L, Jiang K, Wu Q, Duan Z, Xu H, Liu J, Cui Z, Gu M, Wang X, Liu X, Liu X (2014) Two amino acid substitutions in the haemagglutinin of the 2009 pandemic H1N1 virus decrease directcontact transmission in guinea pigs. The Journal of General Virology 95:2612-2617. doi:10.1099/vir.0.067694-0
69. Herfst S, Schrauwen EJA, Linster M, Chutinimitkul S, de Wit E, Munster VJ, Sorrell EM, Bestebroer TM, Burke DF, Smith DJ, Rimmelzwaan GF, Osterhaus AD, Fouchier RA (2012) Airborne transmission of influenza A/H5N1 virus between ferrets. Science 336:1534-1541
70. Hoelzer K, Murcia PR, Baillie GJ, Wood JLN, Metzger SM, Osterrieder N, Dubovi EJ, Holmes EC, Parrish CR (2010) Intrahost evolutionary dynamics of canine influenza virus in naive and partially immune dogs. Journal of Virology 84:5329-5335
71. Hoffmann T, Munier S, Larcher T, Soubieux D, Ledevin M, Esnault E, Tourdes A, Croville G, Guérin JL, Quéré P (2012) Length variations in the NA stalk of an H7N1 influenza virus have opposite effects on viral excretion in chickens and ducks. Journal of Virology 86:584-588
72. Hossain MJ, Hickman D, Perez DR (2008) Evidence of expanded host range and mammalian-associated genetic changes in a duck H9N2 influenza virus following adaptation in quail and chickens. PLoS One 3:e3170
73. Hulse-Post DJ, Sturm-Ramirez KM, Humberd J, Seiler P, Govorkova EA, Krauss S, Scholtissek C, Puthavathana P, Buranathai C, Nguyen TD, Long HT, Naipospos TSP, Chen H, Ellis TM, Guan Y, Peiris JSM, Webster RG (2005) Role of domestic ducks in the propagation and biological evolution of highly pathogenic H5N1 influenza viruses in Asia. Proceedings of the National Academy of Sciences of the USA 102:10682-10687. doi:10.1073/pnas.0504662102
74. Imai M, Watanabe T, Hatta M, Das SC, Ozawa M, Shinya K, Zhong G, Hanson A, Katsura H, Watanabe S, Li C, Kawakami E, Yamada S, Kiso M, Suzuki Y, Maher EA, Neumann G, Kawaoka Y (2012) Experimental adaptation of an influenza H5 HA confers respiratory droplet transmission to a reassortant H5 HA/H1N1 virus in ferrets. Nature 86:420-428. doi:10.1038/nature10831
75. Isoda N, Sakoda Y, Kishida N, Bai GR, Matsuda K, Umemura T, Kida H (2006) Pathogenicity of a highly pathogenic avian influenza virus, A/chicken/Yamaguchi/7/04 (H5N1) in different species of birds and mammals. Archives of Virology 151:1267-1279
76. Jagger B, Wise H, Kash J, Walters K, Wills N, Xiao Y, Dunfee R, Schwartzman L, Ozinsky A, Bell G (2012) An overlapping protein-coding region in influenza A virus segment 3 modulates the host response. Science 337:199-204
77. Jeoung H-Y, Lim S-I, Shin B-H, Lim J-A, Song J-Y, Song D-S, Kang B-K, Moon H-J, An D-J (2013) A novel canine influenza H3N2 virus isolated from cats in an animal shelter. Veterinary Microbiology 165:281-286. doi:10.1016/j.vetmic.2013.03.021
78. Jonges M, Bataille A, Enserink R, Meijer A, Fouchier RAM, Stegeman A, Koch G, Koopmans M (2011) Comparative analysis of avian influenza virus diversity in poultry and humans during a highly pathogenic avian influenza A (H7N7) virus outbreak. Journal of Virology 85:10598-10604
79. Jonges M, Welkers MRA, Jeeninga RE, Meijer A, Schneeberger P, Fouchier RAM, de Jong MD, Koopmans M (2014) Emergence of the virulence-associated PB2 E627 K substitution in a fatal human case of highly pathogenic avian influenza virus A (H7N7) infection as determined by illumina ultra-deep sequencing. Journal of Virology 88:1694-1702. doi:10.1128/JVI.02044-13
80. Kageyama T, Fujisaki S, Takashita E, Xu H, Yamada S, Uchida Y, Neumann G, Saito T, Kawaoka Y, Tashiro M (2013) Genetic analysis of novel avian A(H7N9) influenza viruses isolated from patients in China. Eurosurveillance 18:20453
81. Karasin AI, West K, Carman S, Olsen CW (2004) Characterization of avian H3N3 and H1N1 influenza A viruses isolated from pigs in Canada. Journal of Clinical Microbiology 42:4349-4354
82. Kawaoka Y, Krauss S, Webster RG (1989) Avian-to-human transmission of the PB1 gene of influenza A viruses in the 1957 and 1968 pandemics. Journal of Virology 63:4603-4608
83. Khuntirat BP, Yoon I-K, Blair PJ, Krueger WS, Chittaganpitch M, Putnam SD, Supawat K, Gibbons RV, Pattamadilok S, Sawanpanyalert P, Heil GL, Friary JA, Capuano AW, Gray GC (2011) Evidence for subclinical avian influenza virus infections among rural Thai villagers. Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America 53:e107-e116. doi:10.1093/cid/cir525
84. Kida H, Ito T, Yasuda J, Shimizu Y, Itakura C, Shortridge KF, Kawaoka Y, Webster RG (1994) Potential for transmission of avian influenza viruses to pigs. Journal of General Virology 75:2183-2188
85. Kim H, Song D, Moon H, Yeom M, Park S, Hong M, Na W, Webby RJ, Webster RG, Park B (2012) Inter-and intraspecies transmission of canine influenza virus (H3N2) in dogs, cats, and ferrets. Influenza and Other Respiratory Viruses 7:265-270
86. Kimble JB, Angel M, Wan H, Sutton TC, Finch C, Perez DR (2014) Alternative reassortment events leading to transmissible H9N1 influenza viruses in the ferret model. Journal of Virology 88:66-71. doi:10.1128/JVI.02677-13
87. Kimble JB, Sorrell E, Shao H, Martin PL, Perez DR (2011) Compatibility of H9N2 avian influenza surface genes and 2009 pandemic H1N1 internal genes for transmission in the ferret model. Proceedings of the National Academy of Sciences of the USA 108:12084
88. Lam TT, Wang J, Shen Y, Zhou B, Duan L, Cheung C, Ma C, Lycett SJ, Leung CY, Chen X, Li L, Hong W, Chai Y, Zhou L, Liang H, Ou Z, Liu Y, Farooqui A, Kelvin DJ, Poon LLM, Smith DK, Pybus OG, Leung GM, Shu Y, Webster RG, Webby RJ, Peiris JSM, Rambaut A, Zhu H, Guan Y (2013) The genesis and source of the H7N9 influenza viruses causing human infections in China. Nature 502:241-244. doi:10.1038/nature12515
89. Lakdawala SS, Lamirande EW, Suguitan AL, Wang W, Santos CP, Vogel L, Matsuoka Y, Lindsley WG, Jin H, Subbarao K (2011) Eurasian-origin gene segments contribute to the transmissibility, aerosol release, and morphology of the 2009 pandemic H1N1 influenza virus. PLoS Pathogens 7:e1002443
90. Landolt GA (2014) Equine Influenza Virus. The Veterinary Clinics of North America 30:507-522. doi:10.1016/j.cveq.2014.08.003
91. Le QM, Sakai-Tagawa Y, Ozawa M, Ito M, Kawaoka Y (2009) Selection of H5N1 influenza virus PB2 during replication in humans. Journal of Virology 83:5278-5281
92. Lee Y-N, Lee D-H, Park J-K, Yuk S-S, Kwon J-H, Nahm S-S, Lee J-B, Park S-Y, Choi I-S, Song C-S (2013) Experimental infection and natural contact exposure of ferrets with canine influenza virus (H3N2). The Journal of General Virology 94:293-297. doi:10.1099/vir.0.42473-0
93. Leschnik M, Weikel J, Möstl K, Revilla-Fernández S, Wodak E, Bagó Z, Vanek E, Benetka V, Hess M, Thalhammer JG (2007) Subclinical infection with avian influenza A (H5N1) virus in cats. Emerging Infectious Diseases 13:243-247. doi:10.3201/eid1302.060608
94. Li J, Zu Dohna H, Cardona CJ, Miller J, Carpenter TE (2011) Emergence and genetic variation of neuraminidase stalk deletions in avian influenza viruses. PLoS One 6:e14722
95. Li K, Guan Y, Wang J, Smith G, Xu K, Duan L, Rahardjo A, Puthavathana P, Buranathai C, Nguyen T (2004) Genesis of a highly pathogenic and potentially pandemic H5N1 influenza virus in eastern Asia. Nature 430:209-213
96. Li OTW, Chan MCW, Leung CSW, Chan RWY, Guan Y, Nicholls JM, Poon LLM (2009) Full factorial analysis of mammalian and avian influenza polymerase subunits suggests a role of an efficient polymerase for virus adaptation. PLoS ONE 4:e5658
97. Li X, Shi J, Guo J, Deng G, Zhang Q, Wang J, He X, Suzuki Y, Kawaoka Y, Liu L, Jiang Y, Tian G, Li Y, Bu Z (2014) Genetics, receptor binding property, and transmissibility in mammals of naturally isolated H9N2 avian influenza viruses. PLoS Pathogens 10:e1004508. doi:10.1371/journal.ppat.1004508
98. Lin D, Sun S, Du L, Ma J, Fan L, Pu J, Sun Y, Zhao J, Sun H, Liu J (2012) Natural and experimental infection of dogs with pandemic H1N1/2009 influenza virus. Journal of General Virology 93:119-123
99. Lin YP, Shaw M, Gregory V, Cameron K, Lim W, Klimov A, Subbarao K, Guan Y, Krauss S, Shortridge K, Webster R, Cox N, Hay A (2000) Avian-to-human transmission of H9N2 subtype influenza A viruses: relationship between H9N2 and H5N1 human isolates. Proceedings of the National Academy of Sciences of the USA 97:9654-9658. doi:10.1073/pnas.160270697
100. Linster M, Van Boheemen S, De Graaf M, Schrauwen EJA, Lexmond P, Manz B, Bestebroer TM, Baumann J, Van Riel D, Rimmelzwaan GF, Osterhaus ADME, Matrosovich M, Fouchier RAM, Herfst S (2014) Natural selection of mutations driving airborne transmission of A/H5N1 virus. Cell 157:329-339. doi:10.1016/j.cell.2014.02.040
101. Lipatov AS, Kwon YK, Sarmento LV, Lager KM, Spackman E, Suarez DL, Swayne DE (2008) Domestic pigs have low susceptibility to H5N1 highly pathogenic avian influenza viruses. PLoS Pathogens 4:e1000102
102. Liu D, Shi W, Shi Y, Wang D, Xiao H, Li W, Bi Y, Wu Y, Li X, Yan J, Liu W, Zhao G, Yang W, Wang Y, Ma J, Shu Y, Lei F, Gao GF (2013) Origin and diversity of novel avian influenza A H7N9 viruses causing human infection: phylogenetic, structural, and coalescent analyses. Lancet 381:1926-1932. doi:10.1016/S0140-6736(13)60938-1
103. Liu Q, Qiao C, Marjuki H, Bawa B, Ma J, Guillossou S, Webby RJ, Richt JA, Ma W (2012) Combination of PB2 271A and SR polymorphism at positions 590/591 is critical for viral replication and virulence of swine influenza virus in cultured cells and in vivo. Journal of Virology 86:1233-1237
104. Liu Q, Zhou B, Ma W, Bawa B, Ma J, Wang W, Lang Y, Lyoo Y, Halpin RA, Lin X, Stockwell TB, Webby R, Wentworth DE, Richt JA (2014) Analysis of recombinant H7N9 wild-type and mutant viruses in pigs shows that the Q226L mutation in HA is important for transmission. Journal of Virology 88:8153-8165. doi:10.1128/JVI.00894-14
105. Long JX, Peng DX, Liu YL, Wu YT, Liu XF (2008) Virulence of H5N1 avian influenza virus enhanced by a 15-nucleotide deletion in the viral nonstructural gene. Virus Genes 36:471-478
106. Lu C, Lu J, Chen W, Jiang L, Tan B, Ling W, Zheng B, Sui H (2008) Potential infections of H5N1 and H9N2 avian influenza do exist in Guangdong populations of China. Chinese Medical Journal 121:2050-2053
107. Lu L, Lycett SJ, Leigh Brown AJ (2014) Reassortment patterns of avian influenza virus internal segments among different subtypes. BMC Evolutionary Biology 14:16. doi:10.1186/1471-2148-14-16
108. Ma W, Kahn RE, Richt JA (2009) The pig as a mixing vessel for influenza viruses: human and veterinary implications. Journal of Molecular and Genetic Medicine: An International Journal of Biomedical Research 3:158
109. Makarova NV, Ozaki H, Kida H, Webster RG, Perez DR (2003) Replication and transmission of influenza viruses in Japanese quail. Virology 310:8-15
110. Marshall N, Priyamvada L, Ende Z, Steel J, Lowen AC (2013) Influenza virus reassortment occurs with high frequency in the absence of segment mismatch. PLoS Pathogens 9:e1003421. doi:10.1371/journal.ppat.1003421
111. Matrosovich M, Gambaryan A, Teneberg S, Piskarev V, Yamnikova S, Lvov D, Robertson J, Karlsson KA (1997) Avian influenza A viruses differ from human viruses by recognition of sialyloligosaccharides and gangliosides and by a higher conservation of the HA receptor-binding site. Virology 233:224-234
112. Matrosovich MN, Klenk HD, Kawaoka Y (2006) Receptor specificity, host range and pathogenicity of influenza viruses. Influenza Virology: Current Topics, Wymondham: Caister Academic Press, pp 95-137
113. Matrosovich M, Tuzikov A, Bovin N, Gambaryan A, Klimov A, Castrucci MR, Donatelli I, Kawaoka Y (2000) Early alterations of the receptor-binding properties of H1, H2, and H3 avian influenza virus hemagglutinins after their introduction into mammals. Journal of Virology 74:8502-8512
114. Matsuoka Y, Swayne DE, Thomas C, Rameix-Welti MA, Naffakh N, Warnes C, Altholtz M, Donis R, Subbarao K (2009) Neuraminidase stalk length and additional glycosylation of the hemagglutinin influence the virulence of influenza H5N1 viruses for mice. Journal of Virology 83:4704-4708
115. McAuley JL, Chipuk JE, Boyd KL, Van De Velde N, Green DR, McCullers JA (2010) PB1-F2 proteins from H5N1 and 20th century pandemic influenza viruses cause immunopathology. PLoS Pathogens 6:e1001014
116. Mehle A, Dugan VG, Taubenberger JK, Doudna JA (2012) Reassortment and mutation of the avian influenza virus polymerase PA subunit overcome species barriers. Journal of Virology 86:1750-1757
117. Moncorgé O, Long JS, Cauldwell AV, Zhou H, Lycett SJ, Barclay WS (2013) Investigation of influenza virus polymerase activity in pig cells. Journal of Virology 87:384-394
118. Moon H, Hong M, Kim JK, Seon B, Na W, Park SJ, An DJ, Jeoung HY, Kim DJ, Kim JM, Kim SH, Webby RJ, Webster RG, Kang BK, Song D (2014) H3N2 canine influenza virus with the matrix gene from the pandemic A/H1N1 virus: infection dynamics in dogs and ferrets. Epidemiology and Infection. doi:10.1017/S0950268814001617
119. Morens DM, Taubenberger JK (2010) Historical thoughts on influenza viral ecosystems, or behold a pale horse, dead dogs, failing fowl, and sick swine. Influenza and Other Respiratory Viruses 4:327-337
120. Morens DM, Taubenberger JK (2011) Pandemic influenza: certain uncertainties. Reviews in Medical Virology 21:262-284
121. Munier S, Larcher T, Cormier-Aline F, Soubieux D, Su B, Guigand L, Labrosse B, Cherel Y, Quéré P, Marc D (2010) A genetically engineered waterfowl influenza virus with a deletion in the stalk of the neuraminidase has increased virulence for chickens. Journal of Virology 84:940-952
122. Muramoto Y, Noda T, Kawakami E, Akkina R, Kawaoka Y (2013) Identification of novel influenza A virus proteins translated from PA mRNA. Journal of Virology 87:2455-2462
123. Murcia PR, Hughes J, Battista P, Lloyd L, Baillie GJ, Ramirez-Gonzalez RH, Ormond D, Oliver K, Elton D, Mumford JA, Caccamo M, Kellam P, Grenfell BT, Holmes EC, Wood JLN (2012) Evolution of an Eurasian avian-like influenza virus in Naïve and vaccinated pigs. PLoS Pathogens 8:e1002730
124. Murcia PR, Wood JLN, Holmes EC (2011) Genome-scale evolution and phylodynamics of equine H3N8 influenza A virus. Journal of Virology 85:5312-5322
125. Naffakh N, Massin P, Escriou N, Crescenzo-Chaigne B, van der Werf S (2000) Genetic analysis of the compatibility between polymerase proteins from human and avian strains of influenza A viruses. Journal of General Virology 81:1283-1291
126. Naffakh N, Tomoiu A, Rameix-Welti M, van der Werf S (2008) Host restriction of avian influenza viruses at the level of the ribonucleoproteins. Annual Review of Microbiology 62:403-424
127. Nam JH, Kim EH, Song D, Choi YK, Kim JK, Poo H (2011) Emergence of mammalian species-infectious and-pathogenic avian influenza H6N5 virus with no evidence of adaptation. Journal of Virology 85:13271-13277
128. Nelli RK, Kuchipudi SV, White GA, Perez BB, Dunham SP, Chang KC (2010) Comparative distribution of human and avian type sialic acid influenza receptors in the pig. BMC Veterinary Research 6:4
129. Neumann G, Macken CA, Kawaoka Y (2014) Identification of amino acid changes that may have been critical for the genesis of A(H7N9) influenza viruses. Journal of Virology 88:4877-4896. doi:10.1128/JVI.00107-14
130. Onsirisakul N, Nakakita S, Boonarkart C, Kongchanagul A, Suptawiwat O, Puthavathana P, Chaichuen K, Kittiniyom K, Suzuki Y, Auewarakul P (2014) Substrate specificity of avian influenza H5N1 neuraminidase Naruthai. World Journal of Virology 3:30-36
131. Ontario, Ministry of Agriculture and Food (2011) H1N1 flu infection found in an ontario turkey flock. http://www.omafra. gov.on.ca/english/infores/releases/2009/102009a.htm. Accessed 20 April 2012
132. Pantin-Jackwood MJ, Miller PJ, Spackman E, Swayne DE, Susta L, Costa-Hurtado M, Suarez DL (2014) Role of poultry in the spread of novel H7N9 influenza virus in China. Journal of Virology 88: 5381-5390. doi:10.1128/JVI.03689-13
133. Pasick J, Berhane Y, Hisanaga T, Kehler H, Hooper-McGrevy K, Handel K, Neufeld J, Argue C, Leighton F (2010) Diagnostic test results and pathology associated with the 2007 Canadian H7N3 highly pathogenic avian influenza outbreak. Avian Diseases 54:213-219
134. Pawar SD, Tandale BV, Raut CG, Parkhi SS, Barde TD, Gurav YK, Kode SS, Mishra AC (2012) Avian influenza H9N2 seroprevalence among poultry workers in Pune, India, 2010. PLoS One 7:e36374. doi:10.1371/journal.pone.0036374
135. Pearce MB, Jayaraman A, Pappas C, Belser JA, Zeng H, Gustin KM, Maines TR, Sun X, Raman R, Cox NJ, Sasisekharan R, Katz JM, Tumpey TM (2012) Pathogenesis and transmission of swine origin A (H3N2) v influenza viruses in ferrets. Proceedings of the National Academy of Sciences of the USA 109:3944-3949
136. Peiris M, Yuen KY, Leung CW, Chan KH, Ip PL, Lai RW, Orr WK, Shortridge KF (1999) Human infection with influenza H9N2. Lancet 354:916-917
137. Peiris JS, Guan Y, Markwell D, Ghose P, Webster RG, Shortridge KF (2001) Cocirculation of avian H9N2 and contemporary ‘‘human’’ H3N2 influenza A viruses in pigs in southeastern China: potential for genetic reassortment? Journal of Virology 75:9679-9686. doi:10.1128/JVI.75.20.9679-9686.2001
138. Pena L, Vincent AL, Loving CL, Henningson JN, Lager KM, Li W, Perez DR (2012) Strain-dependent effects of PB1-F2 of triplereassortant H3N2 influenza viruses in swine. Journal of General Virology 93:2204-2214
139. Perez DR, Lim W, Seiler JP, Yi G, Peiris M, Shortridge KF, Webster RG (2003) Role of quail in the interspecies transmission of H9 influenza A viruses: molecular changes on HA that correspond to adaptation from ducks to chickens. Journal of Virology 77:3148-3156
140. Pillai S, Pantin-Jackwood M, Yassine H, Saif Y, Lee C (2010) The high susceptibility of turkeys to influenza viruses of different origins implies their importance as potential intermediate hosts. Avian Diseases 54:522-526
141. Ping J, Keleta L, Forbes NE, Dankar S, Stecho W, Tyler S, Zhou Y, Babiuk L, Weingartl H, Halpin RA (2011) Genomic and protein structural maps of adaptive evolution of human influenza A virus to increased virulence in the mouse. PLoS One 6:e21740
142. Ramos I, Krammer F, Hai R, Aguilera D, Bernal-Rubio D, Steel J, García-Sastre A, Fernandez-Sesma A (2013) H7N9 influenza viruses interact preferentially with a2,3-linked sialic acids and bind weakly to a2,6-linked sialic acids. The Journal of General Virology 94:2417-2423. doi:10.1099/vir.0.056184-0
143. Reed ML, Yen H-L, DuBois RM, Bridges OA, Salomon R, Webster RG, Russell CJ (2009) Amino acid residues in the fusion peptide pocket regulate the pH of activation of the H5N1 influenza virus hemagglutinin protein. Journal of Virology 83:3568-3580. doi:10.1128/JVI.02238-08
144. Reperant LA, Kuiken T, Osterhaus AD (2012) Adaptive pathways of zoonotic influenza viruses: from exposure to establishment in humans. Vaccine 30:4419-4434
145. Richard M, Schrauwen EJA, de Graaf M, Bestebroer TM, Spronken MIJ, van Boheemen S, de Meulder D, Lexmond P, Linster M, Herfst S, Smith DJ, van den Brand JM, Burke DF, Kuiken T, Rimmelzwaan GF, Osterhaus ADME, Fouchier RAM (2013) Limited airborne transmission of H7N9 influenza A virus between ferrets. Nature 501:560-563. doi:10.1038/nature12476
146. Rivailler P, Perry IA, Jang Y, Davis CT, Chen LM, Dubovi EJ, Donis RO (2010) Evolution of canine and equine influenza (H3N8) viruses co-circulating between 2005 and 2008. Virology 408:71-79
147. Schrauwen EJA, Bestebroer TM, Rimmelzwaan GF, Osterhaus ADME, Fouchier RAM, Herfst S (2013) Reassortment between Avian H5N1 and human influenza viruses is mainly restricted to the matrix and neuraminidase gene segments. PLoS One 8:e59889. doi:10.1371/journal.pone.0059889
148. Schrauwen EJA, Bestebroer TM, Munster VJ, De Wit E, Herfst S, Rimmelzwaan GF, Osterhaus ADME, Fouchier RAM (2011) Insertion of a multibasic cleavage site in the haemagglutinin of human influenza H3N2 virus does not increase pathogenicity in ferrets. Journal of General Virology 92:1410-1415
149. Schrauwen EJA, Herfst S, Leijten LM, van Run P, Bestebroer TM, Linster M, Bodewes R, Kreijtz JHCM, Rimmelzwaan GF, Osterhaus ADME (2012) The multibasic cleavage site in H5N1 virus is critical for systemic spread along the olfactory and hematogenous routes in ferrets. Journal of Virology 86:3975-3984
150. Shelton H, Roberts KL, Molesti E, Temperton N, Barclay WS (2013) Mutations in haemagglutinin that affect receptor binding and pH stability increase replication of a PR8 influenza virus with H5 HA in the upper respiratory tract of ferrets and may contribute to transmissibility. The Journal of General Virology 94:1220-1229. doi:10.1099/vir.0.050526-0
151. Shi Y, Zhang W, Wang F, Qi J, Wu Y, Song H, Gao F, Bi Y, Zhang Y, Fan Z, Qin C, Sun H, Liu J, Haywood J, Liu W, Gong W, Wang D, Shu Y, Wang Y, Yan J, Gao GF (2013) Structures and receptor binding of hemagglutinins from human-infecting H7N9 influenza viruses. Science 342:243-247. doi:10.1126/science. 1242917
152. Shichinohe S, Okamatsu M, Sakoda Y, Kida H (2013) Selection of H3 avian influenza viruses with SAa2,6Gal receptor specificity in pigs. Virology 444:404-408. doi:10.1016/j.virol.2013.07.007
153. Shope RE (1931) The etiology of swine influenza. Science 73:214
154. Shu B, Garten R, Emery S, Balish A, Cooper L, Sessions W, Deyde V, Smith C, Berman L, Klimov A (2012) Genetic analysis and antigenic characterization of swine origin influenza viruses isolated from humans in the United States, 1990-2010. Virology 422(1):151-160
155. Song D, An D, Moon H, Yeom M, Jeong H, Jeong W, Park S, Kim H, Han S, Oh J (2011) Interspecies transmission of the canine influenza H3N2 virus to domestic cats in South Korea, 2010. Journal of General Virology 92:2350-2355
156. Song D, Moon HJ, An DJ, Jeoung HY, Kim H, Yeom MJ, Hong M, Nam JH, Park SJ, Park BK (2012) A novel reassortant canine H3N1 influenza virus between pandemic H1N1 and canine H3N2 influenza viruses in Korea. Journal of General Virology 93:551-554
157. Song Q, Zhang F, Liu J, Ling Z, Zhu Y, Jiang S, Xie Z (2013) Dog to dog transmission of a novel influenza virus (H5N2) isolated from a canine. Veterinary Microbiology 161:331-333. doi:10.1016/j.vetmic.2012.07.040
158. Song W, Wang P, Mok BW-Y, Lau S-Y, Huang X, Wu W-L, Zheng M, Wen X, Yang S, Chen Y, Li L, Yuen K-Y, Chen H (2014) The K526R substitution in viral protein PB2 enhances the effects of E627 K on influenza virus replication. Nature Communications 5:5509. doi:10.1038/ncomms6509
159. Songserm T, Jamon R, Sae-Heng N, Meemak N, Hulse-Post DJ, Sturm-Ramirez KM, Webster RG (2006) Domestic ducks and H5N1 influenza epidemic, Thailand. Emerging Infectious Diseases 12:575-581
160. Sorrell E, Perez D (2007) Adaptation of influenza A/Mallard/Potsdam/178-4/83 H2N2 virus in Japanese Quail leads to infection and transmission in chickens. Avian Diseases 51:264-268
161. Sorrell EM, Song H, Pena L, Perez DR (2010) A 27-amino-acid deletion in the neuraminidase stalk supports replication of an avian H2N2 influenza A virus in the respiratory tract of chickens. Journal of Virology 84:11831-11840
162. Sriwilaijaroen N, Kondo S, Yagi H, Takemae N, Saito T, Hiramatsu H, Kato K, Suzuki Y (2011) N-glycans from porcine trachea and lung: predominant NeuAca2-6Gal could be a selective pressure for influenza variants in favor of human-type receptor. PLoS One 6:e16302
163. Steel J, Lowen AC, Mubareka S, Palese P (2009) Transmission of influenza virus in a mammalian host is increased by PB2 amino acids 627 K or 627E/701N. PLoS Pathogens 5:e1000252
164. Stevens J, Blixt O, Chen LM, Donis RO, Paulson JC, Wilson IA (2008) Recent avian H5N1 viruses exhibit increased propensity for acquiring human receptor specificity. Journal of Molecular Biology 381:1382-1394
165. Sturm-Ramirez KM, Hulse-Post DJ, Govorkova EA, Humberd J, Seiler P, Puthavathana P, Buranathai C, Nguyen TD, Chaisingh A, Long HT, Naipospos TSP, Chen H, Ellis TM, Guan Y, Peiris JSM, Webster RG (2005) Are ducks contributing to the endemicity of highly pathogenic H5N1 influenza virus in Asia? Journal of Virology 79:11269-11279. doi:10.1128/JVI.79.17.11269-11279.2005
166. Su S, Wang L, Fu X, He S, Hong M, Zhou P, Lai A, Gray G, Li S (2014) Equine influenza A(H3N8) virus infection in cats. Emerging Infectious Diseases 20:2096-2099. doi:10.3201/eid2012.140867
167. Suarez DL (2010) Avian influenza: our current understanding. Animal Health Research Reviews 11:19-33
168. Sun Y, Sun S, Ma J, Tan Y, Du L, Shen Y, Mu Q, Pu J, Lin D, Liu J (2013) Identification and characterization of avian-origin H3N2 canine influenza viruses in northern China during 2009-2010. Virology 435:301-307
169. Swayne DE (2008) The global nature of avian influenza. In: Avian Influenza, Swayne DE (editor), Ames, IA: Blackwell, pp 123-143
170. Takahashi T, Song J, Suzuki T, Kawaoka Y (2013) Mutations in NA that induced low pH-stability and enhanced the replication of pandemic (H1N1) 2009 influenza A virus at an early stage of the pandemic. PLoS One 8:e64439. doi:10.1371/journal.-pone.0064439
171. Taubenberger JK, Reid AH, Krafft AE, Bijwaard KE, Fanning TG (1997) Initial genetic characterization of the 1918 ‘‘Spanish’’ influenza virus. Science 275:1793
172. Taubenberger JK, Reid AH, Lourens RM, Wang R, Jin G, Fanning TG (2005) Characterization of the 1918 influenza virus polymerase genes. Nature 437:889-893
173. Tharakaraman K, Jayaraman A, Raman R, Viswanathan K, Stebbins NW, Johnson D, Shriver Z, Sasisekharan V, Sasisekharan-Kannan R (2013) Glycan-receptor binding of the influenza A virus H7N9 hemagglutinin. Cell 153:1486-1493. doi:10.1016/j.cell.2013.05.034.
174. Glycan-Receptor Tharakaraman K, Raman R, Viswanathan K, Stebbins NW, Jayaraman A, Krishnan A, Sasisekharan V, SasisekharanKrishnan R (2014) Structural determinants for naturally evolving H5N1 hemagglutinin to switch its receptor specificity. Cell 153:1475-1485. doi:10.1016/j.cell.2013.05.035.Structural
175. Thompson CI, Barclay WS, Zambon MC, Pickles RJ (2006) Infection of human airway epithelium by human and avian strains of influenza a virus. Journal of Virology 80:8060-8068
176. Thontiravong A, Kitikoon P, Wannaratana S, Tantilertcharoen R, Tuanudom R, Pakpinyo S, Sasipreeyajan J, Oraveerakul K, Amonsin A (2012) Quail as a potential mixing vessel for the generation of new reassortant influenza A viruses. Veterinary Microbiology 160:305-313. doi:10.1016/j.vetmic.2012.05.043
177. Tong S, Li Y, Rivailler P, Conrardy C, Castillo DAA, Chen LM, Recuenco S, Ellison JA, Davis CT, York IA, Turmelle AS, Moran D, Rogers S, Shi M, Tao Y, Weil MR, Tang K, Rowe LA, Sammons S, Xu X, Frace M, Lindblade KA, Cox NJ, Anderson LJ, Rupprecht CE, Donis RO (2012) A distinct lineage of influenza A virus from bats. Proceedings of the National Academy of Sciences of the USA 109:4269-4274
178. Tong S, Zhu X, Li Y, Shi M, Zhang J, Bourgeois M, Yang H, Chen X, Recuenco S, Gomez J (2013) New world bats harbor diverse influenza a viruses. PLoS Pathogens 9:e1003657
179. Tumpey TM, Maines TR, Van Hoeven N, Glaser L, Solórzano A, Pappas C, et al. (2007) A two-amino acid change in the hemagglutinin of the 1918 influenza virus abolishes transmission. Science 315:655-659
180. Vahlenkamp TW, Teifke JP, Harder TC, Beer M, Mettenleiter TC (2010) Systemic influenza virus H5N1 infection in cats after gastrointestinal exposure. Influenza and Other Respiratory Viruses 4:379-386. doi:10.1111/j.1750-2659.2010.00173.x
181. Van Poucke SGM, Nicholls JM, Nauwynck HJ, Van Reeth K (2010) Replication of avian, human and swine influenza viruses in porcine respiratory explants and association with sialic acid distribution. Virology Journal 7:38
182. Van Riel D, Munster VJ, De Wit E, Rimmelzwaan GF, Fouchier RAM, Osterhaus ADME, Kuiken T (2007) Human and avian influenza viruses target different cells in the lower respiratory tract of humans and other mammals. The American Journal of Pathology 171:1215
183. Van Riel D, Rimmelzwaan GF, van Amerongen G, Osterhaus ADME, Kuiken T (2010) Highly pathogenic avian influenza virus H7N7 isolated from a fatal human case causes respiratory disease in cats but does not spread systemically. The American Journal of Pathology 177:2185-2190. doi:10.2353/ajpath. 2010.100401
184. Varga ZT, Palese P (2011) The influenza A virus protein PB1-F2: killing two birds with one stone? Virulence 2:542-546
185. Vincent A, Awada L, Brown I, Chen H, Claes F, Dauphin G, Donis R, Culhane M, Hamilton K, Lewis N (2013) Review of influenza A virus in swine worldwide: a call for increased surveillance and research. Zoonoses and Public Health. doi:10.1111/zph.12049
186. Walther T, Karamanska R, Chan RWY, Chan MCW, Jia N, Air G, Hopton C, Wong MP, Dell A, Malik Peiris JS, Haslam SM, Nicholls JM (2013) Glycomic analysis of human respiratory tract tissues and correlation with influenza virus infection. PLoS Pathogens 9:e1003223. doi:10.1371/journal.ppat.1003223
187. Wan H, Sorrell EM, Song H, Hossain MJ, Ramirez-Nieto G, Monne I, Stevens J, Cattoli G, Capua I, Chen LM, Donis RO, Busch J, Paulson JC, Brockwell C, Webby R, Blanco J, Al-Natour MQ, Perez DR (2008) Replication and transmission of H9N2 influenza viruses in ferrets: evaluation of pandemic potential. PLoS One 3:e2923
188. Wang D, Yang L, Gao R, Zhang X, Tan Y, Wu A, Zhu W, Zhou J, Zou S, Li X, Sun Y, Zhang Y, Liu Y, Liu T, Xiong Y, Xu J, Chen L, Weng Y, Qi X, Guo J, Dong J, Huang W, Dong L, Zhao X, Liu L, Lu J, Lan Y, Wei H, Xin L, Chen Y, Xu C, Chen T, Zhu Y, Jiang T, Feng Z, Yang W, Wang Y, Zhu H, Guan Y, Gao G, Li D, Han J, Wang S, Wu G, Shu Y (2014) Genetic tuning of the novel avian influenza A(H7N9) virus during interspecies transmission, China, 2013. Eurosurveillance 19:20836. doi:10.2807/1560-7917.ES2014.19.25.20836
189. Wang H, Wu X, Cheng Y, An Y, Ning Z (2013) Tissue distribution of human and avian type sialic acid influenza virus receptors in domestic cats. Acta Veterinaria Hungarica 61:537-546. doi:10.1556/AVet.2013.030
190. Wang M, Fu C-X, Zheng B-J (2009) Antibodies against H5 and H9 avian influenza among poultry workers in China. The New England Journal of Medicine 360:2583-2584. doi:10.1056/NEJ
191. Wang N, Zou W, Yang Y, Guo X, Hua Y, Zhang Q, Zhao Z, Jin M (2012) Complete genome sequence of an H10N5 avian influenza virus isolated from pigs in central China. Journal of Virology 86:13865-13866
192. Watanabe T, Kiso M, Fukuyama S, Nakajima N, Imai M, Yamada S, Murakami S, Yamayoshi S, Iwatsuki-Horimoto K, Sakoda Y, Takashita E, McBride R, Noda T, Hatta M, Imai H, Zhao D, Kishida N, Shirakura M, de Vries RP, Shichinohe S, Okamatsu M, Tamura T, Tomita Y, Fujimoto N, Goto K, Katsura H, Kawakami E, Ishikawa I, Watanabe S, Ito M, Sakai-Tagawa Y, Sugita Y, Uraki R, Yamaji R, Eisfeld AJ, Zhong G, Fan S, Ping J, Maher EA, Hanson A, Uchida Y, Saito T, Ozawa M, Neumann G, Kida H, Odagiri T, Paulson JC, Hasegawa H, Tashiro M, Kawaoka Y (2013) Characterization of H7N9 influenza A viruses isolated from humans. Nature 501:551-555. doi:10.1038/nature12392
193. Wise HM, Foeglein A, Sun J, Dalton RM, Patel S, Howard W, Anderson EC, Barclay WS, Digard P (2009) A complicated message: Identification of a novel PB1-related protein translated from influenza A virus segment 2 mRNA. Journal of Virology 83:8021-8031
194. Wodal W, Falkner FG, Kerschbaum A, Gaiswinkler C, Fritz R, Kiermayr S, Portsmouth D, Savidis-Dacho H, Coulibaly S, Piskernik C, Hohenadl C, Howard MK, Kistner O, Barrett PN, Kreil TR (2012) A cell culture-derived whole-virus H9N2 vaccine induces high titer antibodies against hemagglutinin and neuraminidase and protects mice from severe lung pathology and weight loss after challenge with a highly virulent H9N2 isolate. Vaccine 30:4625-4631. doi:10.1016/j.vaccine.2012.04.102
195. Xiong X, Martin SR, Haire LF, Wharton SA, Daniels RS, Bennett MS, McCauley JW, Collins PJ, Walker PA, Skehel JJ, Gamblin SJ (2013) Receptor binding by an H7N9 influenza virus from humans. Nature 499:496-499. doi:10.1038/nature12372
196. Xiong X, Xiao H, Martin SR, Coombs PJ, Liu J, Collins PJ, Vachieri SG, Walker PA, Lin YP, McCauley JW, Gamblin SJ, Skehel JJ (2014) Enhanced human receptor binding by H5 haemagglutinins. Virology 456-457:179-187. doi:10.1016/j.virol. 2014.03.008
197. Xu C, Fan W, Wei R, Zhao H (2004) Isolation and identification of swine influenza recombinant A/Swine/Shandong/1/2003(H9N2) virus. Microbes and infection/Institut Pasteur 6:919-925. doi:10.1016/j.micinf.2004.04.015
198. Xu L, Bao L, Deng W, Zhu H, Li F, Chen T, Lv Q, Yuan J, Xu Y, Li Y, Yao Y, Gu S, Yu P, Chen H, Qin C (2014) Rapid adaptation of avian H7N9 virus in pigs. Virology 452-453:231-236. doi:10.1016/j.virol.2014.01.016
199. Xu R, de Vries RP, Zhu X, Nycholat CM, McBride R, Yu W, Paulson JC, Wilson IA (2013) Preferential recognition of avianlike receptors in human influenza A H7N9 viruses. Science 342:1230-1235. doi:10.1126/science.1243761
200. Yamada S, Shinya K, Takada A, Ito T, Suzuki T, Suzuki Y, McCauley JW, Collins PJ, Walker PA, Skehel JJ (2012) Adaptation of a duck influenza A virus in quail. Journal of Virology 86:1411-1420
201. Yang G, Li S, Blackmon S, Ye J, Bradley KC, Cooley J, Smith D, Hanson L, Cardona C, Steinhauer DA, Webby R, Liao M, Wan X-F (2013a) Mutation tryptophan to leucine at position 222 of haemagglutinin could facilitate H3N2 influenza A virus infection in dogs. The Journal of General Virology 94:2599-2608. doi:10.1099/vir.0.054692-0
202. Yang H, Carney PJ, Chang JC, Villanueva JM, Stevens J (2013b) Structural analysis of the hemagglutinin from the recent 2013 H7N9 influenza virus. Journal of Virology 87:12433-12446. doi:10.1128/JVI.01854-13
203. Yu H, Zhou Y-J, Li G-X, Ma J-H, Yan L-P, Wang B, Yang F-R, Huang M, Tong G-Z (2011) Genetic diversity of H9N2 influenza viruses from pigs in China: a potential threat to human health? Veterinary Microbiology 149:254-261. doi:10.1016/j.vetmic. 2010.11.008
204. Yu X, Jin T, Cui Y, Pu X, Li J, Xu J, Liu G, Jia H, Liu D, Song S, Yu Y, Xie L, Huang R, Ding H, Kou Y, Zhou Y, Wang Y, Xu X, Yin Y, Wang J, Guo C, Yang X, Hu L, Wu X, Wang H, Liu J, Zhao G, Zhou J, Pan J, Gao GF, Yang R, Wang J (2014) Influenza H7N9 and H9N2 viruses: coexistence in poultry linked to human H7N9 infection and genome characteristics. Journal of Virology 88: 3423-3431. doi:10.1128/JVI.02059-13.
205. Yuan J, Zhang L, Kan X, Jiang L, Yang J, Guo Z, Ren Q (2013) Origin and molecular characteristics of a novel 2013 avian influenza A(H6N1) virus causing human infection in Taiwan. Clinical Infectious Diseases: An Official Publication of the Infectious Diseases Society of America 57:1367-1368. doi:10.1093/cid/cit479
206. Zell R, Krumbholz A, Eitner A, Krieg R, Halbhuber K, Wutzler P (2007) Prevalence of PB1-F2 of influenza A viruses. Journal of General Virology 88:536-546
207. Zhan G, Ling Z, Zhu Y, Jiang S, Xie Z (2012) Genetic characterization of a novel influenza A virus H5N2 isolated from a dog in China. Veterinary Microbiology 155:409-416. doi:10.1016/j.vetmic.2011.08.017
208. Zhang H, Li X, Guo J, Li L, Chang C, Li Y, Bian C, Xu K, Chen H, Sun B (2014) The PB2 E627 K mutation contributes to the high polymerase activity and enhanced replication of H7N9 influenza virus. The Journal of General Virology 95:779-786. doi:10.1099/vir.0.061721-0
209. Zhang K, Zhang Z, Yu Z, Li L, Cheng K, Wang T, Huang G, Yang S, Zhao Y, Feng N, Fu J, Qin C, Gao Y, Xia X (2013a) Domestic cats and dogs are susceptible to H9N2 avian influenza virus. Virus Research 175:52-57. doi:10.1016/j.virusres.2013.04.004
210. Zhang Q, Shi J, Deng G, Guo J, Zeng X, He X, Kong H, Gu C, Li X, Liu J, Wang G, Chen Y, Liu L, Liang L, Li Y, Fan J, Wang J, Li W, Guan L, Li Q, Yang H, Chen P, Jiang L, Guan Y, Xin X, Jiang Y, Tian G, Wang X, Qiao C, Li C, Bu Z, Chen H (2013b) H7N9 influenza viruses are transmissible in ferrets by respiratory droplet. Science 341:410-414. doi:10.1126/science.1240532
211. Zhang Y, Zhang Q, Gao Y, He X, Kong H, Jiang Y, Guan Y, Xia X, Shu Y, Kawaoka Y, Bu Z, Chen H (2012) Key molecular factors in hemagglutinin and PB2 contribute to efficient transmission of the 2009 H1N1 pandemic influenza virus. Journal of Virology 86:9666-9674. doi:10.1128/JVI.00958-12
212. Zhou H, Yu Z, Hu Y, Tu J, Zou W, Peng Y, Zhu J, Li Y, Zhang A, Yu Z (2009) The special neuraminidase stalk-motif responsible for increased virulence and pathogenesis of H5N1 influenza A virus. PLoS One 4:e6277
213. Zhou J, Wang D, Gao R, Zhao B, Song J, Qi X, Zhang Y, Shi Y, Yang L, Zhu W, Bai T, Qin K, Lan Y, Zou S, Guo J, Dong J, Dong L, Zhang Y, Wei H, Li X, Lu J, Liu L, Zhao X, Li X, Huang W, Wen L, Bo H, Xin L, Chen Y, Xu C, Pei Y, Yang Y, Zhang X, Wang S, Feng Z, Han J, Yang W, Gao GF, Wu G, Li D, Wang Y, Shu Y (2013) Biological features of novel avian influenza A (H7N9) virus. Nature 499:500-503. doi:10.1038/nature12379
214. Zhou P, Hong M, Merrill MM, He H, Sun L, Zhang G (2014) Serological report of influenza A (H7N9) infections among pigs in Southern China. BMC Veterinary Research 10:203. doi:10.1186/s12917-014-0203-x
215. Zohari S, Metreveli G, Kiss I, Belák S, Berg M (2010) Full genome comparison and characterization of avian H10 viruses with different pathogenicity in Mink (Mustela vison) reveals genetic and functional differences in the non-structural gene. Virology Journal 7:145. doi:10.1186/1743-422X-7-145