期刊
GENOME
卷 65, 期 1, 页码 19-26出版社
CANADIAN SCIENCE PUBLISHING
DOI: 10.1139/gen-2021-0006
关键词
DNA methylation; reduced representation bisulfite sequencing; Qingyu pig; Landrace pig
资金
- Sichuan Science and Technology Program [2020YFN0024, 2021YFYZ0030]
- China Agriculture Research System of MOF and MARA [CARS-35-01A]
- National Key R&D Program of China [2018YFD0501204]
- National Natural Science Foundation of China [C170102]
- Sichuan Innovation Team of Pig [sccxtd-2021-08]
In this study, DNA methylation differences between the Chinese Qingyu pig and the Landrace pig were explored using reduced representation bisulfite sequencing (RRBS). Six genomic regions were identified as key regions associated with phenotypic differences, and five differentially methylated genes (ADCY1, FUBP3, GRIN2B, KIT, and PIK3R6) were identified as key candidate genes associated with meat characteristics. These findings provide new insights into the epigenetic research of the Chinese Qingyu pig.
The Chinese Qingyu pig is a typical domestic fatty pig breed and an invaluable indigenous genetic resource in China. Compared with the Landrace pig, the Qingyu pig has unique meat characteristics, including muscle development, intramuscular fat, and other meat quality traits. At present, few studies have explored epigenetic differences due to DNA methylation between the Qingyu pig and the Landrace pig. In this study, 30 Qingyu pigs and 31 Landrace pigs were subjected to reduced representation bisulfite sequencing (RRBS). Genome-wide differential DNA methylation analysis was conducted. Six genomic regions, including regions on Sus scrofa chromosome (SSC) 1: 266.09-274.23 Mb, SSC5: 0.88-10.68 Mb, SSC8: 41.23-48.51 Mb, SSC12: 45.43-54.38 Mb, SSC13: 202.15-207.95 Mb, and SSC14: 126.43-139.85 Mb, were regarded as key regions that may be associated with phenotypic differences between the Qingyu pig and the Landrace pig. Furthermore, according to further analysis, five differentially methylated genes (ADCY1, FUBP3, GRIN2B, KIT, and PIK3R6) were identified as key candidate genes that might be associated with meat characteristics. Our findings provide new insights into the differences in DNA methylation between the Qingyu pig and the Landrace pig. These results enrich the epigenetic research of the Chinese Qingyu pig.
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