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Updated: Feb 15, 2026

Assessment of DNA Contamination in RNA Samples Based on Ribosomal DNA
Published on: January 22, 2018
DNA methylation changes and evolution of RNA-based duplication in Sus scrofa: based on a two-step strategy
Chengchi Fang1, Cheng Zou1, Yuhua Fu1
1Key Lab of Agriculture Animal Genetics, Breeding, & Reproduction of Ministry of Education, College of Animal Sciences & Technology, Huazhong Agricultural University, Wuhan 430070, PR China.
Aim:
This study aims to couple DNA methylation changes and evolution of retrogenes.
Materials & Methods:
A new two-step strategy was developed to screen retrogenes. Further, reduced representation bisulfite sequencing and RNA-seq data of eight tissues were used to analyze retrogenes.
Results:
A total of 964 retrocopies were identified and new retrocopies were available for the synthesis of glycans and lipids corresponding to pig phenotypic traits. Retrogenes were consistently hypermethylated. Hypomethylation of parental genes presented more susceptibility to retroposition. Promoter DNA methylation of retrogenes was negatively correlated with evolutionary time and played important roles in regulating retrogene tissue-specific expression pattern.
Conclusion:
A two-step procedure is effective and necessary for identifying retrogenes. DNA methylation drives origination, survival, evolution and expression of retrogenes.
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