RNA deep sequencing reveals novel candidate genes and polymorphisms in boar testis and liver tissues with divergent androstenone levels

Gunawan, Asep, Sahadevan, Sudeep, Neuhoff, Christiane, Grosse-Brinkhaus, Christine, Gad, Ahmed, Frieden, Luc, Tesfaye, Dawit, Tholen, Ernst, Looft, Christian, Uddin, Muhammad Jasim, Schellander, Karl and Cinar, Mehmet Ulas (2013) RNA deep sequencing reveals novel candidate genes and polymorphisms in boar testis and liver tissues with divergent androstenone levels. PLoS One, 8 5: e63259.1-e63259.15. doi:10.1371/journal.pone.0063259


Author Gunawan, Asep
Sahadevan, Sudeep
Neuhoff, Christiane
Grosse-Brinkhaus, Christine
Gad, Ahmed
Frieden, Luc
Tesfaye, Dawit
Tholen, Ernst
Looft, Christian
Uddin, Muhammad Jasim
Schellander, Karl
Cinar, Mehmet Ulas
Title RNA deep sequencing reveals novel candidate genes and polymorphisms in boar testis and liver tissues with divergent androstenone levels
Journal name PLoS One   Check publisher's open access policy
ISSN 1932-6203
Publication date 2013-05
Sub-type Article (original research)
DOI 10.1371/journal.pone.0063259
Open Access Status DOI
Volume 8
Issue 5
Start page e63259.1
End page e63259.15
Total pages 15
Place of publication San Francisco, CA, United States
Publisher Public Library of Science
Collection year 2014
Language eng
Abstract Boar taint is an unpleasant smell and taste of pork meat derived from some entire male pigs. The main causes of boar taint are the two compounds androstenone (5α-androst-16-en-3-one) and skatole (3-methylindole). It is crucial to understand the genetic mechanism of boar taint to select pigs for lower androstenone levels and thus reduce boar taint. The aim of the present study was to investigate transcriptome differences in boar testis and liver tissues with divergent androstenone levels using RNA deep sequencing (RNA-Seq). The total number of reads produced for each testis and liver sample ranged from 13,221,550 to 33,206,723 and 12,755,487 to 46,050,468, respectively. In testis samples 46 genes were differentially regulated whereas 25 genes showed differential expression in the liver. The fold change values ranged from -4.68 to 2.90 in testis samples and -2.86 to 3.89 in liver samples. Differentially regulated genes in high androstenone testis and liver samples were enriched in metabolic processes such as lipid metabolism, small molecule biochemistry and molecular transport. This study provides evidence for transcriptome profile and gene polymorphisms of boars with divergent androstenone level using RNA-Seq technology. Digital gene expression analysis identified candidate genes in flavin monooxygenease family, cytochrome P450 family and hydroxysteroid dehydrogenase family. Moreover, polymorphism and association analysis revealed mutation in IRG6, MX1, IFIT2, CYP7A1, FMO5 and KRT18 genes could be potential candidate markers for androstenone levels in boars. Further studies are required for proving the role of candidate genes to be used in genomic selection against boar taint in pig breeding programs.
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
School of Veterinary Science Publications
 
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