Copy number deletion has little impact on gene expression levels in racehorses

• Published in: Animal bioscience Vol. 27; no. 9; pp. 1345 - 1354
• Main Authors: Park, Kyung-Do, Kim, Hyeongmin, Hwang, Jae Yeon, Lee, Chang-Kyu, Do, Kyoung-Tag, Kim, Heui-Soo, Yang, Young-Mok, Kwon, Young-Jun, Kim, Jaemin, Kim, Hyeon Jeong, Song, Ki-Duk, Oh, Jae-Don, Kim, Heebal, Cho, Byung-Wook, Cho, Seoae, Lee, Hak-Kyo
• Format: Journal Article
• Language: English
• Published: Korea (South) Asian - Australasian Association of Animal Production Societies 01.09.2014; Asian-Australasian Association of Animal Production Societies (AAAP) and Korean Society of Animal Science and Technology (KSAST); Asian-Australasian Association of Animal Production Societies; 아세아·태평양축산학회
• Subjects: Copy Number Variation; Gene expression; Genetic aspects; Genetic code; Genetic research; Genome-wide Expression; Horse; Race horses; Thoroughbred; Zoological research; 축산학; Genome-wide Expression; Copy Number Variation; Horse; Thoroughbred
• ISSN: 1011-2367; 2765-0189; 1976-5517; 2765-0235
• DOI: 10.5713/ajas.2013.13857

Copy number variations (CNVs), important genetic factors for study of human diseases, may have as large of an effect on phenotype as do single nucleotide polymorphisms. Indeed, it is widely accepted that CNVs are associated with differential disease susceptibility. However, the relationships between CNVs and gene expression have not been characterized in the horse. In this study, we investigated the effects of copy number deletion in the blood and muscle transcriptomes of Thoroughbred racing horses. We identified a total of 1,246 CNVs of deletion polymorphisms using DNA re-sequencing data from 18 Thoroughbred racing horses. To discover the tendencies between CNV status and gene expression levels, we extracted CNVs of four Thoroughbred racing horses of which RNA sequencing was available. We found that 252 pairs of CNVs and genes were associated in the four horse samples. We did not observe a clear and consistent relationship between the deletion status of CNVs and gene expression levels before and after exercise in blood and muscle. However, we found some pairs of CNVs and associated genes that indicated relationships with gene expression levels: a positive relationship with genes responsible for membrane structure or cytoskeleton and a negative relationship with genes involved in disease. This study will lead to conceptual advances in understanding the relationship between CNVs and global gene expression in the horse.