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A space-time permutation model was applied (e.g. The Euclidean distance between each sequence and the median Latitude and Longitude was calculated using ‘geodist’ package in Stata 15 (StataCorp 2017) and sequences above the 99th percentile of distance to the median Latitude and Longitude were considered outliers and excluded.Ī dataset of total number of non-identical sequences per location per day was created for each region and uploaded to SatScan (Kulldorff et al. For each region, the median Latitude and median Longitude of sequences location was calculated. Because sequences were mostly distributed in two different US regions, analysis was stratified per region as defined by the US Census. Sequences considered vaccine-like (≥98% nucleotide identity with strain VR2332 – parent strain of the first modified-live vaccine) were also excluded from the analysis. 100% nucleotide identity) from the same farm up to 30 days apart were considered repeated sampling and were excluded. Sequences without information about the source farm coordinates were excluded from the analysis. Here, we present preliminary analysis of this study.Ī comprehensive PRRSV ORF5 sequence dataset was obtained from MSHMP participant systems. Weekly voluntary reporting allows MSHMP to monitor disease trends therefore, we aim to assess the relationship between space-time clustering and genetic diversity of PRRSV ORF5 in MSHMP participants molecular diagnostic data. The Morrison Swine Health Monitoring Project (MSHMP) is a national initiative aimed at monitoring endemic swine diseases such as PRRSV with a current enrollment representing close to 50% of the U.S. 2002) and temporal clustering of outbreaks has rarely been studied simultaneously (Goldberg et al.
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2000 Mondaca-Fernández, Murtaugh, and Morrison 2006 Mortensen et al. 2002), the relationship between space clustering of farms undergoing outbreaks and genetic similarity have been controversial (Goldberg et al. While some studies found evidence supporting airborne transmission of PRRSV (Lager, Mengeling, and Wesley 2002 Mortensen et al. long-distance movements) factors on viral transmission. through pig movement, fomite, or airborne) versus long distance (e.g. Specifically, little is known about the relative contribution of local (e.g. However, PRRSV transmission continues to be a critical aspect for disease management and control, as it is still not fully understood despite numerous biosecurity measures enhancements and epidemiological studies. Molecular epidemiology of PRRSV has become a popular approach in outbreak investigations and ORF5 sequencing has also been widely used as a surveillance tool. PRRSV is a positive-stranded RNA, and as such has a relatively high mutation rate and rapid evolution (Cortey et al. It quickly became and still is one of the most important diseases affecting pigs due to the associated economic losses to the swine industry worldwide. Porcine reproductive and respiratory syndrome virus (PRRSV) has been present in the United States (US) pig population for at least 3 decades with the first cases identified in the late 1980s and the first viral isolation in 1991 (Benfield et al. Department of Veterinary Population Medicine, College of Veterinary Medicine, University of Minnesota, United States