Distinct characteristics and complex evolution of PEDV strains, North America, May 2013-February 2014

Porcine epidemic diarrhea virus (PEDV), which emerged in the United States in 2013, has spread throughout North America. Limited availability of PEDV complete genomes worldwide has impeded our understanding of PEDV introduction into the United States. To determine the relationship between the North...

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Bibliographic Details
Published in:Emerging infectious diseases 2014-10, Vol.20 (10), p.1620-1628
Main Authors: Vlasova, Anastasia N, Marthaler, Douglas, Wang, Qiuhong, Culhane, Marie R, Rossow, Kurt D, Rovira, Albert, Collins, James, Saif, Linda J
Format: Article
Language:English
Subjects:
Animals
Biological Evolution
complete genome analysis
Coronavirus Infections - epidemiology
Coronavirus Infections - veterinary
Coronavirus Infections - virology
Coronaviruses
Disease transmission
Genetic aspects
Genetic research
Genetic Variation
Genome, Viral
North America - epidemiology
Open Reading Frames - genetics
phylogenetic analysis
porcine epidemic diarrhea virus
Porcine epidemic diarrhea virus - classification
Porcine epidemic diarrhea virus - genetics
Porcine epidemic diarrhea virus - isolation & purification
Prevention
Reassortant Viruses
recombination identification analysis
S INDEL strains
Swine
Swine Diseases - epidemiology
Swine Diseases - virology
Time Factors
Viral Proteins - genetics
Viral Proteins - metabolism
virulent strains
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Summary:Porcine epidemic diarrhea virus (PEDV), which emerged in the United States in 2013, has spread throughout North America. Limited availability of PEDV complete genomes worldwide has impeded our understanding of PEDV introduction into the United States. To determine the relationship between the North American strains and global emerging and historic PEDV strains, we sequenced and analyzed complete genomes of 74 strains from North America; the strains clustered into 2 distinct clades. Compared with the initially reported virulent US PEDV strains, 7 (9.7%) strains from 4 states contained insertions and deletions in the spike gene (S INDELs). These S INDEL strains share 99.8%-100% nt identity with each other and 96.2%-96.7% nt identity with the initial US strains. Furthermore, the S INDEL strains form a distinct cluster within North American clade II, sharing 98.6%-100% nt identity overall. In the United States, the S INDEL and original PEDV strains are co-circulating and could have been introduced simultaneously.
ISSN:1080-6040
1080-6059
DOI:10.3201/eid2010.140491