Abstract: The seminar will discuss our efforts to investigate gene regulatory processes occurring throughout the cell, from the nucleus to the mitochondria. We established native elongating transcript sequencing (NET-seq) and nanopore analysis of co-transcriptional processing (nano-COP) that probe transcription elongation and co-transcriptional processing. These approaches monitor where, when and how splicing occurs across long human nascent transcripts that contain multiple introns. We found that splicing occurs in human cells after minutes on average, consistent with other studies. Interestingly, we observe that proximal introns are more often spliced together than introns spaced apart, indicating that splicing of proximal introns is coordinated. I will also discuss our work towards answering a fundamental question in eukaryotic gene expression: how are nuclear- and mitochondrial-encoded genes co-regulated? We are developing genome-wide approaches to probe how the mitochondrial genome is regulated, from DNA structure to translational control. I will cover our latest work in this area.
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