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Volumn 1, Issue 6, 2016, Pages

A phylogenybased global nomenclature system and automated annotation tool for H1 hemagglutinin genes from swine influenza A viruses

(16)  Anderson, Tavis K a   Macken, Catherine A b   Lewis, Nicola S c   Scheuermann, Richard H d,e   Van Reeth, Kristien f   Brown, Ian H g   Swenson, Sabrina L h   Simon, Gaëlle i   Saito, Takehiko j   Berhane, Yohannes k   Ciacci Zanella, Janice l   Pereda, Ariel m   Davis, C Todd n   Donis, Ruben O n   Webby, Richard J o   Vincent, Amy L a  


Author keywords

H1N1; H1N2; Influenza A virus; Molecular epidemiology; Nomenclature; Swine; Virus evolution

Indexed keywords


EID: 85030127224     PISSN: None     EISSN: 23795042     Source Type: Journal    
DOI: 10.1128/mSphere.00275-16     Document Type: Article
Times cited : (151)

References (61)
  • 1
    • 0034701743 scopus 로고    scopus 로고
    • The epidemiology and evolution of influenza viruses in pigs
    • Brown IH. 2000. The epidemiology and evolution of influenza viruses in pigs. Vet Microbiol 74:29-46. http://dx.doi.org/10.1016/S0378-1135(00)00164-4
    • (2000) Vet Microbiol , vol.74 , pp. 29-46
    • Brown, I.H.1
  • 2
    • 0029873804 scopus 로고    scopus 로고
    • Dual infections of feeder pigs with porcine reproductive and respiratory syndrome virus followed by porcine respiratory coronavirus or swine influenza virus: a clinical and virological study
    • Van Reeth K, Nauwynck H, Pensaert M. 1996. Dual infections of feeder pigs with porcine reproductive and respiratory syndrome virus followed by porcine respiratory coronavirus or swine influenza virus: a clinical and virological study. Vet Microbiol 48:325-335. http://dx.doi.org/10.1016/ 0378-1135(95)00145-X
    • (1996) Vet Microbiol , vol.48 , pp. 325-335
    • Van Reeth, K.1    Nauwynck, H.2    Pensaert, M.3
  • 3
    • 0034961633 scopus 로고    scopus 로고
    • Interaction between Mycoplasma hyopneumoniae and swine influenza virus
    • Thacker EL, Thacker BJ, Janke BH. 2001. Interaction between Mycoplasma hyopneumoniae and swine influenza virus. J Clin Microbiol 39:2525-2530. http://dx.doi.org/10.1128/JCM.39.7.2525-2530.2001
    • (2001) J Clin Microbiol , vol.39 , pp. 2525-2530
    • Thacker, E.L.1    Thacker, B.J.2    Janke, B.H.3
  • 5
    • 84925647280 scopus 로고    scopus 로고
    • Reverse zoonosis of influenza to swine: new perspectives on the human-animal interface
    • Nelson MI, Vincent AL. 2015. Reverse zoonosis of influenza to swine: new perspectives on the human-animal interface. Trends Microbiol 23: 142-153. http://dx.doi.org/10.1016/j.tim.2014.12.002
    • (2015) Trends Microbiol , vol.23 , pp. 142-153
    • Nelson, M.I.1    Vincent, A.L.2
  • 8
    • 84945905525 scopus 로고    scopus 로고
    • Novel reassortant human-like H3N2 and H3N1 influenza A viruses detected in pigs are virulent and antigenically distinct from swine viruses endemic to the United States
    • Rajão DS, Gauger PC, Anderson TK, Lewis NS, Abente EJ, Killian ML, Perez DR, Sutton TC, Zhang J, Vincent AL. 2015. Novel reassortant human-like H3N2 and H3N1 influenza A viruses detected in pigs are virulent and antigenically distinct from swine viruses endemic to the United States. J Virol 89:11213-11222. http://dx.doi.org/10.1128/ JVI.01675-15
    • (2015) J Virol , vol.89 , pp. 11213-11222
    • Rajão, D.S.1    Gauger, P.C.2    Anderson, T.K.3    Lewis, N.S.4    Abente, E.J.5    Killian, M.L.6    Perez, D.R.7    Sutton, T.C.8    Zhang, J.9    Vincent, A.L.10
  • 9
    • 84906883059 scopus 로고    scopus 로고
    • A brief introduction to influenza A virus in swine
    • Vincent AL, Lager KM, Anderson TK. 2014. A brief introduction to influenza A virus in swine. Methods Mol Biol 1161:243-258. http:// dx.doi.org/10.1007/978-1-4939-0758-8_20
    • (2014) Methods Mol Biol , vol.1161 , pp. 243-258
    • Vincent, A.L.1    Lager, K.M.2    Anderson, T.K.3
  • 11
    • 84892434226 scopus 로고
    • Swine influenza: III. Filtration experiments and etiology
    • Shope RE. 1931. Swine influenza: III. Filtration experiments and etiology. J Exp Med 54:373-385. http://dx.doi.org/10.1084/jem.54.3.373
    • (1931) J Exp Med , vol.54 , pp. 373-385
    • Shope, R.E.1
  • 12
    • 0037053093 scopus 로고    scopus 로고
    • The emergence of novel swine influenza viruses in North America
    • Olsen CW. 2002. The emergence of novel swine influenza viruses in North America. Virus Res 85:199-210. http://dx.doi.org/10.1016/S0168-1702(02)00027-8
    • (2002) Virus Res , vol.85 , pp. 199-210
    • Olsen, C.W.1
  • 19
    • 0027319691 scopus 로고
    • Genetic reassortment between avian and human influenza A viruses in Italian pigs
    • Castrucci MR, Donatelli I, Sidoli L, Barigazzi G, Kawaoka Y, Webster RG. 1993. Genetic reassortment between avian and human influenza A viruses in Italian pigs. Virology 193:503-506. http://dx.doi.org/10.1006/ viro.1993.1155
    • (1993) Virology , vol.193 , pp. 503-506
    • Castrucci, M.R.1    Donatelli, I.2    Sidoli, L.3    Barigazzi, G.4    Kawaoka, Y.5    Webster, R.G.6
  • 20
    • 0029282103 scopus 로고
    • Disease outbreaks in pigs in Great Britain due to an influenza A virus of H1N2 subtype
    • Brown IH, Chakraverty P, Harris PA, Alexander DJ. 1995. Disease outbreaks in pigs in Great Britain due to an influenza A virus of H1N2 subtype. Vet Rec 136:328-329. http://dx.doi.org/10.1136/vr.136.13.328
    • (1995) Vet Rec , vol.136 , pp. 328-329
    • Brown, I.H.1    Chakraverty, P.2    Harris, P.A.3    Alexander, D.J.4
  • 22
    • 72549084898 scopus 로고    scopus 로고
    • Characterization of a newly emerged genetic cluster of H1N1 and H1N2 swine influenza virus in the United States
    • Vincent AL, Ma W, Lager KM, Gramer MR, Richt JA, Janke BH. 2009. Characterization of a newly emerged genetic cluster of H1N1 and H1N2 swine influenza virus in the United States. Virus Genes 39:176-185. http://dx.doi.org/10.1007/s11262-009-0386-6
    • (2009) Virus Genes , vol.39 , pp. 176-185
    • Vincent, A.L.1    Ma, W.2    Lager, K.M.3    Gramer, M.R.4    Richt, J.A.5    Janke, B.H.6
  • 24
    • 84928566166 scopus 로고    scopus 로고
    • Characterization of co-circulating swine influenza A viruses in North America and the identification of a novel H1 genetic clade with antigenic significance
    • Anderson TK, Campbell BA, Nelson MI, Lewis NS, Janas-Martindale A, Killian ML, Vincent AL. 2015. Characterization of co-circulating swine influenza A viruses in North America and the identification of a novel H1 genetic clade with antigenic significance. Virus Res 201:24-31. http:// dx.doi.org/10.1016/j.virusres.2015.02.009
    • (2015) Virus Res , vol.201 , pp. 24-31
    • Anderson, T.K.1    Campbell, B.A.2    Nelson, M.I.3    Lewis, N.S.4    Janas-Martindale, A.5    Killian, M.L.6    Vincent, A.L.7
  • 27
    • 0017641965 scopus 로고
    • Persistence of Hong Kong influenza virus variants in pigs
    • Shortridge KF, Webster RG, Butterfield WK, Campbell CH. 1977. Persistence of Hong Kong influenza virus variants in pigs. Science 196: 1454-1455. http://dx.doi.org/10.1126/science.867041
    • (1977) Science , vol.196 , pp. 1454-1455
    • Shortridge, K.F.1    Webster, R.G.2    Butterfield, W.K.3    Campbell, C.H.4
  • 29
    • 46349110927 scopus 로고    scopus 로고
    • Toward a unified nomenclature system for highly pathogenic avian influenza virus (H5N1)
    • WHO/OIE/FAO H5N1 Evolution Working Group. 2008. Toward a unified nomenclature system for highly pathogenic avian influenza virus (H5N1). Emerg Infect Dis 14:e1. http://dx.doi.org/10.3201/ eid1407.071681
    • (2008) Emerg Infect Dis , vol.14 , pp. e1
  • 32
    • 84935898136 scopus 로고    scopus 로고
    • Genetic characterization of H1N1 and H1N2 influenza A viruses circulating in Ontario pigs in 2012
    • Grgić H, Costa M, Friendship RM, Carman S, Nagy é, Poljak Z. 2015. Genetic characterization of H1N1 and H1N2 influenza A viruses circulating in Ontario pigs in 2012. PLoS One 10:e0127840. http://dx.doi.org/ 10.1371/journal.pone.0127840
    • (2015) PLoS One , vol.10
    • Grgić, H.1    Costa, M.2    Friendship, R.M.3    Carman, S.4    Nagy, É.5    Poljak, Z.6
  • 33
    • 79952592842 scopus 로고    scopus 로고
    • Detection of influenza A virus in porcine oral fluid samples
    • Detmer SE, Patnayak DP, Jiang Y, Gramer MR, Goyal SM. 2011. Detection of influenza A virus in porcine oral fluid samples. J Vet Diagn Invest 23:241-247. http://dx.doi.org/10.1177/104063871102300207
    • (2011) J Vet Diagn Invest , vol.23 , pp. 241-247
    • Detmer, S.E.1    Patnayak, D.P.2    Jiang, Y.3    Gramer, M.R.4    Goyal, S.M.5
  • 36
    • 84958580744 scopus 로고    scopus 로고
    • Novel human-like influenza A viruses circulate in swine in Mexico and Chile
    • ecurrents.outbreaks. c8b3207c9bad98474eca3013fa933ca6
    • Nelson M, Culhane MR, Rovira A, Torremorell M, Guerrero P, Norambuena J. 2015. Novel human-like influenza A viruses circulate in swine in Mexico and Chile. PLoS Curr 7:ecurrents.outbreaks. c8b3207c9bad98474eca3013fa933ca6. http://dx.doi.org/10.1371/ currents.outbreaks.c8b3207c9bad98474eca3013fa933ca6
    • (2015) PLoS Curr 7
    • Nelson, M.1    Culhane, M.R.2    Rovira, A.3    Torremorell, M.4    Guerrero, P.5    Norambuena, J.6
  • 37
    • 84893059551 scopus 로고    scopus 로고
    • Genetics, evolution, and the zoonotic capacity of European swine influenza viruses
    • Zell R, Scholtissek C, Ludwig S. 2013. Genetics, evolution, and the zoonotic capacity of European swine influenza viruses. Curr Top Microbiol Immunol 370:29-55. http://dx.doi.org/10.1007/82_2012_267
    • (2013) Curr Top Microbiol Immunol , vol.370 , pp. 29-55
    • Zell, R.1    Scholtissek, C.2    Ludwig, S.3
  • 38
    • 84929591014 scopus 로고    scopus 로고
    • Continual reintroduction of human pandemic H1N1 influenza A viruses into swine in the United States, 2009 to 2014
    • Nelson MI, Stratton J, Killian ML, Janas-Martindale A, Vincent AL. 2015. Continual reintroduction of human pandemic H1N1 influenza A viruses into swine in the United States, 2009 to 2014. J Virol 89: 6218-6226. http://dx.doi.org/10.1128/JVI.00459-15
    • (2015) J Virol , vol.89 , pp. 6218-6226
    • Nelson, M.I.1    Stratton, J.2    Killian, M.L.3    Janas-Martindale, A.4    Vincent, A.L.5
  • 40
    • 84880810621 scopus 로고    scopus 로고
    • Swine influenza virus vaccines: to change or not to change-that's the question
    • Van Reeth K, Ma W. 2012. Swine influenza virus vaccines: to change or not to change-that's the question. Curr Top Microbiol Immunol 370: 173-200. http://dx.doi.org/10.1007/82_2012_266
    • (2012) Curr Top Microbiol Immunol , vol.370 , pp. 173-200
    • Van Reeth, K.1    Ma, W.2
  • 41
    • 84863517708 scopus 로고    scopus 로고
    • Ranking viruses: measures of positional importance within networks define core viruses for rational polyvalent vaccine development
    • Anderson TK, Laegreid WW, Cerutti F, Osorio FA, Nelson EA, Christopher-Hennings J, Goldberg TL. 2012. Ranking viruses: measures of positional importance within networks define core viruses for rational polyvalent vaccine development. Bioinformatics 28:1624-1632. http://dx.doi.org/10.1093/bioinformatics/bts181
    • (2012) Bioinformatics , vol.28 , pp. 1624-1632
    • Anderson, T.K.1    Laegreid, W.W.2    Cerutti, F.3    Osorio, F.A.4    Nelson, E.A.5    Christopher-Hennings, J.6    Goldberg, T.L.7
  • 42
    • 0035859995 scopus 로고    scopus 로고
    • Efficacy of vaccination of pigs with different H1N1 swine influenza viruses using a recent challenge strain and different parameters of protection
    • Van Reeth K, Labarque G, De Clercq S, Pensaert M. 2001. Efficacy of vaccination of pigs with different H1N1 swine influenza viruses using a recent challenge strain and different parameters of protection. Vaccine 19:4479-4486. http://dx.doi.org/10.1016/S0264-410X(01)00206-7
    • (2001) Vaccine , vol.19 , pp. 4479-4486
    • Van Reeth, K.1    Labarque, G.2    De Clercq, S.3    Pensaert, M.4
  • 43
    • 84883279693 scopus 로고    scopus 로고
    • Efficacy in pigs of inactivated and live attenuated influenza virus vaccines against infection and transmission of an emerging H3N2 similar to the 2011-2012 H3N2v
    • Loving CL, Lager KM, Vincent AL, Brockmeier SL, Gauger PC, Anderson TK, Kitikoon P, Perez DR, Kehrli ME. 2013. Efficacy in pigs of inactivated and live attenuated influenza virus vaccines against infection and transmission of an emerging H3N2 similar to the 2011-2012 H3N2v. J Virol 87:9895-9903. http://dx.doi.org/10.1128/JVI.01038-13
    • (2013) J Virol , vol.87 , pp. 9895-9903
    • Loving, C.L.1    Lager, K.M.2    Vincent, A.L.3    Brockmeier, S.L.4    Gauger, P.C.5    Anderson, T.K.6    Kitikoon, P.7    Perez, D.R.8    Kehrli, M.E.9
  • 44
    • 77954814729 scopus 로고    scopus 로고
    • Efficacy of commercial swine influenza vaccines against challenge with a recent European H1N1 field isolate
    • Kyriakis CS, Gramer MR, Barbé F, Van Doorsselaere J, Van Reeth K. 2010. Efficacy of commercial swine influenza vaccines against challenge with a recent European H1N1 field isolate. Vet Microbiol 144:67-74. http://dx.doi.org/10.1016/j.vetmic.2009.12.039
    • (2010) Vet Microbiol , vol.144 , pp. 67-74
    • Kyriakis, C.S.1    Gramer, M.R.2    Barbé, F.3    Van Doorsselaere, J.4    Van Reeth, K.5
  • 45
    • 0026529212 scopus 로고
    • Hemagglutinin mutations related to antigenic variation in H1 swine influenza viruses
    • Luoh SM, McGregor MW, Hinshaw VS. 1992. Hemagglutinin mutations related to antigenic variation in H1 swine influenza viruses. J Virol 66:1066-1073
    • (1992) J Virol , vol.66 , pp. 1066-1073
    • Luoh, S.M.1    McGregor, M.W.2    Hinshaw, V.S.3
  • 46
    • 0021083797 scopus 로고
    • Hemagglutinin of swine influenza virus: a single amino acid change pleiotropically affects viral antigenicity and replication
    • Both GW, Shi CH, Kilbourne ED. 1983. Hemagglutinin of swine influenza virus: a single amino acid change pleiotropically affects viral antigenicity and replication. Proc Natl Acad Sci U S A 80:6996-7000. http:// dx.doi.org/10.1073/pnas.80.22.6996
    • (1983) Proc Natl Acad Sci U S A , vol.80 , pp. 6996-7000
    • Both, G.W.1    Shi, C.H.2    Kilbourne, E.D.3
  • 47
    • 84871648925 scopus 로고    scopus 로고
    • The impact of maternally derived immunity on influenza A virus transmission in neonatal pig populations
    • Allerson M, Deen J, Detmer SE, Gramer MR, Joo HS, Romagosa A, Torremorell M. 2013. The impact of maternally derived immunity on influenza A virus transmission in neonatal pig populations. Vaccine 31:500-505. http://dx.doi.org/10.1016/j.vaccine.2012.11.023
    • (2013) Vaccine , vol.31 , pp. 500-505
    • Allerson, M.1    Deen, J.2    Detmer, S.E.3    Gramer, M.R.4    Joo, H.S.5    Romagosa, A.6    Torremorell, M.7
  • 48
    • 0344838385 scopus 로고    scopus 로고
    • Effect of maternally derived antibodies on the clinical signs and immune response in pigs after primary and secondary infection with an influenza H1N1 virus
    • Loeffen WLA, Heinen PP, Bianchi ATJ, Hunneman WA, Verheijden JHM. 2003. Effect of maternally derived antibodies on the clinical signs and immune response in pigs after primary and secondary infection with an influenza H1N1 virus. Vet Immunol Immunopathol 92:23-35. http:// dx.doi.org/10.1016/S0165-2427(03)00019-9
    • (2003) Vet Immunol Immunopathol , vol.92 , pp. 23-35
    • Loeffen, W.L.A.1    Heinen, P.P.2    Bianchi, A.T.J.3    Hunneman, W.A.4    Verheijden, J.H.M.5
  • 49
    • 79952244491 scopus 로고    scopus 로고
    • Enhanced pneumonia and disease in pigs vaccinated with an inactivated human-like (δ-cluster) H1N2 vaccine and challenged with pandemic 2009 H1N1 influenza virus
    • Gauger PC, Vincent AL, Loving CL, Lager KM, Janke BH, Kehrli ME, Roth JA. 2011. Enhanced pneumonia and disease in pigs vaccinated with an inactivated human-like (δ-cluster) H1N2 vaccine and challenged with pandemic 2009 H1N1 influenza virus. Vaccine 29:2712-2719. http://dx.doi.org/10.1016/j.vaccine.2011.01.082
    • (2011) Vaccine , vol.29 , pp. 2712-2719
    • Gauger, P.C.1    Vincent, A.L.2    Loving, C.L.3    Lager, K.M.4    Janke, B.H.5    Kehrli, M.E.6    Roth, J.A.7
  • 50
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh K, Misawa K, Kuma K-I, Miyata T. 2002. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 30:3059-3066. http://dx.doi.org/10.1093/nar/gkf436
    • (2002) Nucleic Acids Res , vol.30 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.-I.3    Miyata, T.4
  • 51
    • 84875619226 scopus 로고    scopus 로고
    • MAFFT multiple sequence alignment software version 7: improvements in performance and usability
    • Katoh K, Standley DM. 2013. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30:772-780. http://dx.doi.org/10.1093/molbev/mst010
    • (2013) Mol Biol Evol , vol.30 , pp. 772-780
    • Katoh, K.1    Standley, D.M.2
  • 54
    • 84899553363 scopus 로고    scopus 로고
    • RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
    • Stamatakis A. 2014. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30:1312-1313. http://dx.doi.org/10.1093/bioinformatics/btu033
    • (2014) Bioinformatics , vol.30 , pp. 1312-1313
    • Stamatakis, A.1
  • 57
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian phylogenetic inference under mixed models
    • Ronquist F, Huelsenbeck JP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574. http:// dx.doi.org/10.1093/bioinformatics/btg180
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 58
    • 84972492387 scopus 로고
    • Inference from iterative simulation using multiple sequences
    • Gelman A, Rubin DB. 1992. Inference from iterative simulation using multiple sequences. Stat Sci 7:457-472. http://dx.doi.org/10.1214/ss/ 1177011136
    • (1992) Stat Sci , vol.7 , pp. 457-472
    • Gelman, A.1    Rubin, D.B.2
  • 59
    • 84870450672 scopus 로고    scopus 로고
    • MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis
    • Kumar S, Stecher G, Peterson D, Tamura K. 2012. MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis. Bioinformatics 28:2685-2686. http:// dx.doi.org/10.1093/bioinformatics/bts507
    • (2012) Bioinformatics , vol.28 , pp. 2685-2686
    • Kumar, S.1    Stecher, G.2    Peterson, D.3    Tamura, K.4
  • 60
    • 77958610660 scopus 로고    scopus 로고
    • pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
    • Matsen FA, Kodner RB, Armbrust EV. 2010. pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics 11:538. http:// dx.doi.org/10.1186/1471-2105-11-538
    • (2010) BMC Bioinformatics , vol.11 , pp. 538
    • Matsen, F.A.1    Kodner, R.B.2    Armbrust, E.V.3


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