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ARS Home » Midwest Area » Ames, Iowa » National Animal Disease Center » Food Safety and Enteric Pathogens Research » Research » Publications at this Location » Publication #389568
Research Project: Intestinal Microbial Ecology and Non-Antibiotic Strategies to Limit Shiga Toxin-Producing Escherichia coli (STEC) and Antimicrobial Resistance Transmission in Food Animals

Location: Food Safety and Enteric Pathogens Research

Title: Diversity of Alternative Splicing in Porcine Peripheral Blood Immune Cells

Author
item LIM, KYU-SANG - Iowa State University
item HERRERA-URIBE, JUBER - Iowa State University
item Loving, Crystal
item Byrne, Kristen
item Smith, Timothy - Tim
item BEIKI, HAMID - Iowa State Hygienic Laboratory
item REECY, JAMES - Iowa State University
item TUGGLE, CHRISTOPHER - Iowa State University
item KOLTES, JAMES - Iowa State University

Submitted to: Plant and Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: 7/14/2022
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: Proteome complexity is driven in part by alternative splicing, which may produce multiple distinct mature transcript isoforms from a single gene by splicing of different combinations of exons. The average number of annotated isoforms per gene in pigs is less than half of the average in the human genome, suggesting a deficiency of known pig isoforms. This hypothesis was tested by determining alternative splicing patterns of pig transcripts in nine peripheral blood immune cell types using full-length isoform sequencing (Iso-seq). On average, 105,584 high quality distinct isoforms were identified, of which 10.7% were not previously annotated, documenting a deficiency in the annotation of pig isoforms. Chromatin accessibility in these cell types was also examined using ATAC-seq to reveal the relationship between splicing variability of transcripts and chromatin accessibility of promoter regions. The improved annotation of splice forms and relationship with promoter status contributes to a more complete picture of the pig immune transcriptome in circulating blood cells and will support future studies of the role(s) of alternative splicing in immune cell functions in pigs.