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United States: new PEDV strains detected in US swine

PEDV S1 sequences from 5 cases (ISU cases 1-5) only have 93.9-94.6% nucleotide identities to the PEDV strains previously identified in US swine.

Monday 3 February 2014 (4 years 6 months 12 days ago)
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According to AASV publications, Iowa State University Veterinary Diagnostic Laboratory (ISU VDL) is offering PEDV S1 (first 2.2 kb portion of the spike gene) sequencing to the clientele to help determine the genetic relatedness and molecular epidemiology of PEDV in US swine. During the time periods of January 24 – January 29, 2014, PEDV S1 sequencing was performed on 15 PEDV cases at ISU VDL. Among them, PEDV S1 sequences from 10 cases (ISU cases 6-15) are similar to each other and to the PEDV strains identified in US swine since April 2013 (99.1-100% nucleotide identities). In distinct contrast, the PEDV S1 sequences from the other 5 cases (ISU cases 1-5) only have 93.9-94.6% nucleotide identities to the PEDV strains previously identified in US swine. However, these 5 PEDV cases shared 99.6-100% nucleotide identities to each other based on the S1 sequences.

Phylogenetic analysis based on the S1 sequences demonstrated that aforementioned 10 PEDV cases clustered together with PEDV strains identified in US since April 2013. However, the aforementioned 5 PEDV cases clustered very differently from the PEDV strains previously identified in US swine. Sequence alignment showed that the S1 sequences of these 5 PEDV cases had some deletions and insertions compared to PEDV viruses previously identified in US. Based on the data currently available, it appears unlikely that this strain is a mutant evolved from PEDV previously identified in US swine. Determination of the entire genome sequences of these new PEDVs are in progress and will help determine the origin of the viruses.

Friday January 31, 2014/ AASV/ United States.
http://www.aasv.org

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