Show simple item record

Exploring the roles of RNAPII in genome organization

dc.contributor.advisorPapantonis, Argyris Prof. Dr.
dc.contributor.authorZhang, Shu
dc.format.extent123 Seitende
dc.titleExploring the roles of RNAPII in genome organizationde
dc.contributor.refereePapantonis, Argyris Prof. Dr.
dc.description.abstractengThe role of RNAPII in 3D genome organization has been heavily debated over the last two decades. Here, in situ Hi-C and Micro-C data were used to conclusively address this debate. I discovered that: 1) using cell population in situ Hi-C data, longer loops with enhanced signal appear upon RNAPII depletion. Together with a rewired-loop pattern of gained loops in the absence of RNAPII, I can suggest that RNAPII may impede cohesin extrusion in human cells; 2) using in situ Hi-C data in G1-sorted cells, I observed loops with longer length, stronger signal, and stronger insulation, which are in line with the cell population in situ Hi-C data. Moreover, a diffuse signal pattern emerges upon RNAPII depletion in this data. Taken together, my data indicate RNAPII impeding cohesin extrusion in interphase. 3) using Micro-C data, transcription-level loops are captured, which show much weaker signal and insulation than CTCF loops. Moreover, on average, ~20% reduction in chromatin-bound CTCF and cohesin is seen in the absence of RNAPII. While this degree of loss does not affect loop detection in Micro-C maps, “transcription only” loops (especially enhancer-anchored loops) are severely weakened or lost in the absence of RNAPII. In addition, enhancer-bound cohesin is reduced by ~50%. Surprisingly, promoter-anchored loops are more stable than enhancer-anchored ones in the absence of RNAPII. Collectively, RNAPII is required for the formation of enhancer-anchored loops; and 4) using in situ Hi-C data from cells entering G1 after mitosis, ~20% reduction of chromatin-bound CTCF and cohesin is seen in the absence of RNAPII and loop formation is affected genome-wide during reentry into G1. Interestingly, as observed in Micro-C data, cohesin occupancy is reduced more at enhancers than promoters upon RNAPII degradation in this transition. Moreover, compartmentalization was also affected in the absence of RNAPII upon reentry G1. Thus, I can conclude that RNAPII is required to properly refold the genome during the mitosis to G1
dc.contributor.coRefereeBeißbarth, Tim Prof. Dr.
dc.subject.eng3D genome organizationde
dc.subject.engenhancer-promoter interactions
dc.subject.engloop extrusion
dc.affiliation.instituteBiologische Fakultät für Biologie und Psychologiede
dc.subject.gokfullBiologie (PPN619462639)de
dc.notes.confirmationsentConfirmation sent 2022-12-19T06:15:02de

Files in this item


This item appears in the following Collection(s)

Show simple item record