N6-adenosine Methylation of Enhancer RNAs and YTHDC1 Facilitate Transcriptional Condensate Formation and 3D Chromatin Organization

Eukaryotic chromatin is pervasively transcribed into nascent RNAs. However, a mechanistic understanding of their general roles remains lacking. Here, we characterized the landscapes of N6-adenosine methylation (i.e. m6A) on nascent RNAs using a new method that we referred to as MINT-Seq. We found widespread m6A deposition on nascent RNAs produced from regulatory elements including enhancer RNAs (eRNAs) and promoter upstream antisense RNAs (uaRNAs). Overall design: The lanscape of m6A methylation on enhancer RNAs in human cells using MINT-Seq. We also examined the roles of m6A-eRNAs and YTHDC1 in transcriptional regulation and 3D genome structure with GRO-Seq, TT-Seq, ChIP-Seq and, Hi-C.