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Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses

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...

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Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Asian-Australasian Association of Animal Production Societies (AAAP) and Korean Society of Animal Science and Technology (KSAST) 2014
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4150202/
https://www.ncbi.nlm.nih.gov/pubmed/25178379
http://dx.doi.org/10.5713/ajas.2013.13857
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author 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
author_facet 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
author_sort Park, Kyung-Do
collection PubMed
description 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.
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spelling pubmed-41502022014-09-02 Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses 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 Asian-Australas J Anim Sci Article 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. Asian-Australasian Association of Animal Production Societies (AAAP) and Korean Society of Animal Science and Technology (KSAST) 2014-09 /pmc/articles/PMC4150202/ /pubmed/25178379 http://dx.doi.org/10.5713/ajas.2013.13857 Text en Copyright © 2014 by Asian-Australasian Journal of Animal Sciences This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License http://creativecommons.org/licenses/by-nc/3.0/ which permits unrestricted noncommercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Article
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
Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title_full Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title_fullStr Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title_full_unstemmed Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title_short Copy Number Deletion Has Little Impact on Gene Expression Levels in Racehorses
title_sort copy number deletion has little impact on gene expression levels in racehorses
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4150202/
https://www.ncbi.nlm.nih.gov/pubmed/25178379
http://dx.doi.org/10.5713/ajas.2013.13857
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