Phylogeny of Spanish swine influenza viruses isolated from respiratory disease outbreaks and evolution of swine influenza virus within an endemically infected farm

Gerard E Martín-Valls; Meritxell Simon-Grifé; Sander van Boheemen; Miranda de Graaf; Theo M Bestebroer; Núria Busquets; Margarita Martín; Jordi Casal; Ron A M Fouchier; Enric Mateu

doi:10.1016/j.vetmic.2014.02.031

Phylogeny of Spanish swine influenza viruses isolated from respiratory disease outbreaks and evolution of swine influenza virus within an endemically infected farm

Vet Microbiol. 2014 Jun 4;170(3-4):266-77. doi: 10.1016/j.vetmic.2014.02.031. Epub 2014 Mar 2.

Authors

Affiliations

¹ Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain. Electronic address: g.e.martinvalls@gmail.com.
² Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain. Electronic address: meritxell.simon@hipra.es.
³ Department of Virology, Erasmus Medical Center, Erasmus University, 3015GE Rotterdam, The Netherlands. Electronic address: s.vanboheemen@erasmusmc.nl.
⁴ Department of Virology, Erasmus Medical Center, Erasmus University, 3015GE Rotterdam, The Netherlands. Electronic address: m.degraaf@erasmusmc.nl.
⁵ Department of Virology, Erasmus Medical Center, Erasmus University, 3015GE Rotterdam, The Netherlands. Electronic address: t.bestebroer@erasmusmc.nl.
⁶ Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain. Electronic address: nuria.busquets@cresa.uab.cat.
⁷ Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain; Departament de Sanitat i Anatomia animals, Universitat Autònoma de Barcelona (UAB), 08193 Bellaterra, Barcelona, Spain. Electronic address: marga.martin@uab.cat.
⁸ Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain; Departament de Sanitat i Anatomia animals, Universitat Autònoma de Barcelona (UAB), 08193 Bellaterra, Barcelona, Spain. Electronic address: jordi.casal@uab.cat.
⁹ Department of Virology, Erasmus Medical Center, Erasmus University, 3015GE Rotterdam, The Netherlands. Electronic address: r.fouchier@erasmusmc.nl.
¹⁰ Centre de Recerca en Sanitat Animal (CReSA), UAB-IRTA, Campus de la Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain; Departament de Sanitat i Anatomia animals, Universitat Autònoma de Barcelona (UAB), 08193 Bellaterra, Barcelona, Spain. Electronic address: enric.mateu@uab.cat.

PMID: 24685238
DOI: 10.1016/j.vetmic.2014.02.031

Abstract

In the present study, outbreaks of respiratory disease were investigated for the presence of swine influenza virus (SIV). In 14 cases the circulating SIV strains were isolated, fully sequenced and compared with other known SIVs. The viruses causing the outbreaks belonged to the H1N1 (including human pandemic H1N1), H3N2 and H1N2 subtypes. In 11/14 cases the phylogenetic analyses indicated the occurrence of probable reassortment events. In the second part of the study, the genetic evolution of H1N1 SIV was assessed in a longitudinal study in closed groups of pigs over six months. Sequencing of the 22 isolates indicated co-circulation of two different variants for the same virus, as well as the emergence of SIV reassortants at certain time-points. These results indicate that reassortment events in SIV are common, and point towards the need for a better understanding of the epidemiology of SIV, particularly in endemic farms.

Keywords: Influenza; Reassortment; SIV emergence; Swine.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Base Sequence
Evolution, Molecular*
Influenza A Virus, H1N1 Subtype / classification
Influenza A Virus, H1N1 Subtype / genetics
Influenza A Virus, H1N1 Subtype / isolation & purification
Influenza A Virus, H1N2 Subtype / classification
Influenza A Virus, H1N2 Subtype / genetics
Influenza A Virus, H1N2 Subtype / isolation & purification
Influenza A Virus, H3N2 Subtype / classification
Influenza A Virus, H3N2 Subtype / genetics
Influenza A Virus, H3N2 Subtype / isolation & purification
Influenza A virus / classification*
Influenza A virus / genetics*
Influenza A virus / isolation & purification
Molecular Sequence Data
Orthomyxoviridae Infections / veterinary*
Orthomyxoviridae Infections / virology
Phylogeny*
Reassortant Viruses / classification
Reassortant Viruses / genetics
Reassortant Viruses / isolation & purification
Sequence Alignment
Sequence Homology, Nucleic Acid
Spain
Swine
Swine Diseases / virology*

Associated data

GENBANK/JX908030
GENBANK/JX908031
GENBANK/JX908032
GENBANK/JX908033
GENBANK/JX908034
GENBANK/JX908035
GENBANK/JX908036
GENBANK/JX908037
GENBANK/JX908038
GENBANK/JX908039
GENBANK/JX908040
GENBANK/JX908041