Spatially resolved transcriptomics in human cell nuclei
Dr Jorg MORF
Babraham Institute, Cambridge, United Kingdom
Thursday, November 14th 2019 - 10 a.m.
- Auditorium, IGBMC
Hosted by Functional genomics and cancer, Nacho MOLINA
Spatial transcriptomics aims to understand how the ensemble of RNA molecules in tissues and cells is organized in 3D space. To probe the spatial RNA organization, we developed Proximity RNA-seq, a ligation-free method based on massive-throughput RNA barcoding of subcellular particles and assemblies in water-in-oil emulsion droplets, followed by sequencing. In human nuclei, we identified co-localization preferences for pairs and groups of nuclear-retained and nascent RNAs and detect RNA-rich, phase-separated structures, such as the nucleolus and speckles. Unexpectedly, the transcriptional output of the genome measured by Proximity RNA-seq suggests that heterochromatin is interspersed with nucleic acid-dense regions encompassing active genes with faster transcription kinetics.