Genetic architecture of gene expression underlying variation in host response to porcine reproductive and respiratory syndrome virus infection

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2017-01-01
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Kommadath, Arun
Bao, Hua
Choi, Igseo
Koltes, James
Fritz-Waters, Elyn
Eisley, Chris
Grant, Jason
Rowland, Robert
Tuggle, Christopher
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Reecy, James
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Animal Science

The Department of Animal Science originally concerned itself with teaching the selection, breeding, feeding and care of livestock. Today it continues this study of the symbiotic relationship between animals and humans, with practical focuses on agribusiness, science, and animal management.

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The Department of Animal Husbandry was established in 1898. The name of the department was changed to the Department of Animal Science in 1962. The Department of Poultry Science was merged into the department in 1971.

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Statistics
As leaders in statistical research, collaboration, and education, the Department of Statistics at Iowa State University offers students an education like no other. We are committed to our mission of developing and applying statistical methods, and proud of our award-winning students and faculty.
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It has been shown that inter-individual variation in host response to porcine reproductive and respiratory syndrome (PRRS) has a heritable component, yet little is known about the underlying genetic architecture of gene expression in response to PRRS virus (PRRSV) infection. Here, we integrated genome-wide genotype, gene expression, viremia level, and weight gain data to identify genetic polymorphisms that are associated with variation in inter-individual gene expression and response to PRRSV infection in pigs. RNA-seq analysis of peripheral blood samples collected just prior to experimental challenge (day 0) and at 4, 7, 11 and 14 days post infection from 44 pigs revealed 6,430 differentially expressed genes at one or more time points post infection compared to the day 0 baseline. We mapped genetic polymorphisms that were associated with inter-individual differences in expression at each day and found evidence of cis-acting expression quantitative trait loci (cis-eQTL) for 869 expressed genes (qval < 0.05). Associations between cis-eQTL markers and host response phenotypes using 383 pigs suggest that host genotype-dependent differences in expression of GBP5, GBP6, CCHCR1 and CMPK2 affect viremia levels or weight gain in response to PRRSV infection.

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This article is published as Kommadath, Arun, Hua Bao, Igseo Choi, James M. Reecy, James E. Koltes, Elyn Fritz-Waters, Chris J. Eisley et al. "Genetic architecture of gene expression underlying variation in host response to porcine reproductive and respiratory syndrome virus infection." Scientific reports 7 (2017): 46203. doi: 10.1038/srep46203.

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