Integrated Analysis of Methylome, Transcriptome and miRNAome of Three Pig Breeds

AIM: Integrated analysis of methylome and transcriptome may help understand the molecular basis of the different breeds with different traits of commercial interest. MATERIALS & METHODS: We obtained the first genome-wide methylome with single-base resolution, miRNAome and transcriptome from three swine breeds. RESULTS: We displayed the landscape of the three omics in the whole-genome level. Integrated outcomes of methylome with genetic selection, miRNAome and transcriptome are also provided. Finally, we identified 11 candidate differentially methylated genes associated with phenotype variance in pigs. CONCLUSION: DNA methylation not only suppresses transcriptome but also miRNAome. The different -omics data have complicated interaction in directly or indirectly and exhibited close relations with the distinct phenotypic traits of growth, disease resistance and energy metabolism.