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| Status |
Public on Aug 02, 2014 |
| Title |
Genome-wide DNA methylation changes in skeletal muscle between young and middle-aged pigs |
| Organism |
Sus scrofa |
| Experiment type |
Expression profiling by array
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| Summary |
Background
Age-related physiological, biochemical and functional changes in mammalian skeletal muscle have been shown to begin at the mid-point of the lifespan. However, the underlying changes in DNA methylation that occur during this turning point of the muscle aging process have not been clarified. To explore age-related genomic methylation changes in skeletal muscle, we employed young (0.5 years old) and middle-aged (7 years old) pigs as models to survey genome-wide DNA methylation in the longissimus dorsi muscle using a methylated DNA immunoprecipitation sequencing approach.
Results
We observed a tendency toward a global loss of DNA methylation in the gene-body region of the skeletal muscle of the middle-aged pigs compared with the young group. We determined the genome-wide gene expression pattern in the longissimus dorsi muscle using microarray analysis and performed a correlation analysis using DMR (differentially methylated region)-mRNA pairs, and we found a significant negative correlation between the changes in methylation levels within gene bodies and gene expression. Furthermore, we identified numerous genes that show age-related methylation changes that are potentially involved in the aging process. The methylation status of these genes was confirmed using bisulfite sequencing PCR. The genes that exhibited a hypomethylated gene body in middle-aged pigs were over-represented in various proteolysis and protein catabolic processes, suggesting an important role for these genes in age-related muscle atrophy. In addition, genes associated with tumorigenesis exhibited aged-related differences in methylation and expression levels, suggesting an increased risk of disease associated with increased age.
Conclusions
This study provides a comprehensive analysis of genome-wide DNA methylation patterns in aging pig skeletal muscle. Our findings will serve as a valuable resource in aging studies, promoting the pig as a model organism for human aging research and accelerating the development of comparative animal models in aging research.
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| Overall design |
We collected the longissimus dorsi muscles tissue from Jinhua pigs which aged 0.5 year and seven years and study the genome-wide DNA methylation difference and the genome-wide gene expression profile between the two age periods.
This submission represents transcriptome component of study.
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| Contributor(s) |
Jin L |
| Citation(s) |
25096499 |
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| Submission date |
Aug 12, 2013 |
| Last update date |
Nov 24, 2014 |
| Contact name |
long jin |
| E-mail(s) |
jinlong2012benming@gmail.com
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| Organization name |
Sichuan Agricultural University
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| Street address |
Ya’an, Xinkang Road #46 Sichuan
|
| City |
Ya'an |
| State/province |
Sichuan |
| ZIP/Postal code |
625014 |
| Country |
China |
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| Platforms (1) |
| GPL10162 |
Agilent-020109 Porcine Gene Expression Microarray (44K) (Probe Name version) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA215021 |
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