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Volume 29, Number 7—July 2023
Dispatch

Surveillance and Genomic Characterization of Influenza A and D Viruses in Swine, Belgium and the Netherlands, 2019–2021

Anna Parys, Nick Vereecke, Elien Vandoorn, Sebastiaan Theuns, and Kristien Van ReethComments to Author 
Author affiliations: Ghent University, Merelbeke, Belgium (A. Parys, E. Vandoorn, K. Van Reeth); Ghent University and PathoSense BV, Lier, Belgium (N. Vereecke, S. Theuns)

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Table 2

Swine influenza A virus genotypes of 23 viruses isolated from pigs in Belgium and the Netherlands, November 2019–December 2021*

Subtype Genotype Surface genes
Internal genes
Total
HA NA PB2 PB1 PA NP M NS
H1N1 M H1av N1av av av av av p av 4
A H1av N1av av av av av av av 3
AB H1av N1av av av av p av av 1
AC H1av N1av av av av av p p 1
S pH1 N1av p p p p p p 2

H
H1hu
N1av

av
av
av
av
av
av
1
H1N2 AR H1av N2g av av av av p av 1
R pH1 N2g p p p p p p 6
C H1hu N2s av av av av av av 1
AI H1hu N2g av av av av p av 1

AQ
H1hu
N2s

av
av
av
av
p
av
1
H3N2 N H3g N2g av av av av p av 1

*Nomenclature as described by Watson et al. (7). av, European avian-like; g, A/swine/Gent/1/1984-like; HA, hemagglutinin; hu, European human-like; M, matrix; NA, neuraminidase; NP, nucleoprotein; NS, nonstructural protein; p, 2009 pandemic; PA, polymerase; PB, polymerase basic; s, A/swine/Scotland/410440/1994-like.

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References
  1. Anderson  TK, Chang  J, Arendsee  ZW, Venkatesh  D, Souza  CK, Kimble  JB, et al. Swine influenza A viruses and the tangled relationship with humans. Cold Spring Harb Perspect Med. 2021;11:a038737. DOIPubMedGoogle Scholar
  2. Liu  R, Sheng  Z, Huang  C, Wang  D, Li  F. Influenza D virus. Curr Opin Virol. 2020;44:15461. DOIPubMedGoogle Scholar
  3. Theuns  S, Vanmechelen  B, Bernaert  Q, Deboutte  W, Vandenhole  M, Beller  L, et al. Nanopore sequencing as a revolutionary diagnostic tool for porcine viral enteric disease complexes identifies porcine kobuvirus as an important enteric virus. Sci Rep. 2018;8:9830. DOIPubMedGoogle Scholar
  4. Henritzi  D, Zhao  N, Starick  E, Simon  G, Krog  JS, Larsen  LE, et al. Rapid detection and subtyping of European swine influenza viruses in porcine clinical samples by haemagglutinin- and neuraminidase-specific tetra- and triplex real-time RT-PCRs. Influenza Other Respir Viruses. 2016;10:50417. DOIPubMedGoogle Scholar
  5. Van Poelvoorde  LAE, Bogaerts  B, Fu  Q, De Keersmaecker  SCJ, Thomas  I, Van Goethem  N, et al. Whole-genome-based phylogenomic analysis of the Belgian 2016-2017 influenza A(H3N2) outbreak season allows improved surveillance. Microb Genom. 2021;7:000643. DOIPubMedGoogle Scholar
  6. Vereecke  N, Kvisgaard  LK, Baele  G, Boone  C, Kunze  M, Larsen  LE, et al. Molecular epidemiology of porcine parvovirus type 1 (PPV1) and the reactivity of vaccine-induced antisera against historical and current PPV1 strains. Virus Evol. 2022;8:veac053.
  7. Chepkwony  S, Parys  A, Vandoorn  E, Stadejek  W, Xie  J, King  J, et al. Genetic and antigenic evolution of H1 swine influenza A viruses isolated in Belgium and the Netherlands from 2014 through 2019. Sci Rep. 2021;11:11276. DOIPubMedGoogle Scholar
  8. Watson  SJ, Langat  P, Reid  SM, Lam  TTY, Cotten  M, Kelly  M, et al.; ESNIP3 Consortium. ESNIP3 Consortium. Molecular epidemiology and evolution of influenza viruses circulating within European swine between 2009 and 2013. J Virol. 2015;89:992031. DOIPubMedGoogle Scholar
  9. Henritzi  D, Petric  PP, Lewis  NS, Graaf  A, Pessia  A, Starick  E, et al. Surveillance of European domestic pig populations identifies an emerging reservoir of potentially zoonotic swine influenza A viruses. Cell Host Microbe. 2020;28:614627.e6. DOIPubMedGoogle Scholar
  10. Chernomor  O, von Haeseler  A, Minh  BQ. Terrace aware data structure for phylogenomic inference from supermatrices. Syst Biol. 2016;65:9971008. DOIPubMedGoogle Scholar
  11. Vandoorn  E, Leroux-Roels  I, Leroux-Roels  G, Parys  A, Vincent  A, Van Reeth  K. Detection of H1 swine influenza A virus antibodies in human serum samples by age group. Emerg Infect Dis. 2020;26:211828. DOIPubMedGoogle Scholar
  12. Sun  H, Xiao  Y, Liu  J, Wang  D, Li  F, Wang  C, et al. Prevalent Eurasian avian-like H1N1 swine influenza virus with 2009 pandemic viral genes facilitating human infection. Proc Natl Acad Sci U S A. 2020;117:1720410. DOIPubMedGoogle Scholar
  13. Trombetta  CM, Montomoli  E, Di Bartolo  I, Ostanello  F, Chiapponi  C, Marchi  S. Detection of antibodies against influenza D virus in swine veterinarians in Italy in 2004. J Med Virol. 2022;94:28559. DOIPubMedGoogle Scholar
  14. Borkenhagen  LK, Mallinson  KA, Tsao  RW, Ha  SJ, Lim  WH, Toh  TH, et al. Surveillance for respiratory and diarrheal pathogens at the human-pig interface in Sarawak, Malaysia. PLoS One. 2018;13:e0201295. DOIPubMedGoogle Scholar
  15. Borkenhagen  LK, Salman  MD, Ma  MJ, Gray  GC. Animal influenza virus infections in humans: A commentary. Int J Infect Dis. 2019;88:1139. DOIPubMedGoogle Scholar

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