Venkatesh Geetha, Tönges Sina, Hanna Katharina, Ng Yi Long, Whelan Rose, Andriantsoa Ranja, Lingenberg Annika, Roy Suki, Nagarajan Sanjanaa, Fong Steven, Raddatz Günter, Böhl Florian, Lyko Frank
Division of Epigenetics, DKFZ-ZMBH Alliance, German Cancer Research Center, Im Neuenheimer Feld 580, Heidelberg 69120, Germany.
School of Applied Science, Republic Polytechnic, 9 Woodlands Avenue 9, Singapore 738964, Singapore.
Environ Epigenet. 2023 Jan 23;9(1):dvad001. doi: 10.1093/eep/dvad001. eCollection 2023.
DNA methylation is an important epigenetic modification that is widely conserved across animal genomes. It is widely accepted that DNA methylation patterns can change in a context-dependent manner, including in response to changing environmental parameters. However, this phenomenon has not been analyzed in animal livestock yet, where it holds major potential for biomarker development. Building on the previous identification of population-specific DNA methylation in clonal marbled crayfish, we have now generated numerous base-resolution methylomes to analyze location-specific DNA methylation patterns. We also describe the time-dependent conversion of epigenetic signatures upon transfer from one environment to another. We further demonstrate production system-specific methylation signatures in shrimp, river-specific signatures in salmon and farm-specific signatures in chicken. Together, our findings provide a detailed resource for epigenetic variation in animal livestock and suggest the possibility for origin tracing of animal products by epigenetic fingerprinting.
DNA甲基化是一种重要的表观遗传修饰，在动物基因组中广泛存在。人们普遍认为，DNA甲基化模式可以根据环境变化而改变，包括对环境参数变化的响应。然而，这种现象尚未在畜牧动物中得到分析，而这在生物标志物开发方面具有巨大潜力。基于之前在克隆大理石纹螯虾中鉴定出的群体特异性DNA甲基化，我们现在已经生成了大量碱基分辨率的甲基化组，以分析特定位置的DNA甲基化模式。我们还描述了从一种环境转移到另一种环境时表观遗传特征的时间依赖性转换。我们进一步证明了虾中生产系统特异性的甲基化特征、鲑鱼中河流特异性的特征以及鸡中农场特异性的特征。总之，我们的研究结果为畜牧动物的表观遗传变异提供了详细的资源，并表明通过表观遗传指纹识别来追溯动物产品来源的可能性。
