RT Journal Article
SR Electronic
T1 Topology of gene regulatory compartments relative to the nuclear matrix
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2022.05.10.491284
DO 10.1101/2022.05.10.491284
A1 Gunhee Park
A1 Kwangmin Ryu
A1 Junho Lee
A1 Geunhee Kim
A1 Tae Lim Park
A1 Hwanyong Shim
A1 YigJi Lee
A1 Changyeop Kim
A1 Won-Ki Cho
YR 2022
UL http://biorxiv.org/content/early/2022/05/10/2022.05.10.491284.abstract
AB Inside the nucleus, there are special compartments with characterized functions, some of which are involved in gene expression1. These compartments include transcriptional condensates and nuclear speckles, which contain factors required for transcription and splicing, respectively. While the characteristics of these intranuclear compartments were extensively investigated, spatial relationship between them is yet unclear. Meanwhile, RNA-protein structural network named the nuclear matrix has been observed inside the nucleus and suggested as a framework for the spatial segregation of the intranuclear space2–6. However, concept of the nuclear matrix was not widely accepted due to its lack of in vivo evidence7. Here, we report visualization of the nuclear matrix and intranuclear compartments using super-resolution fluorescence microscopy. We found the nuclear matrix is dynamic in live cells and easily disrupted upon transcription inhibition. Remarkably, we observed an orderly layered distribution of transcriptional condensates and nuclear speckles relative to the nuclear matrix. We also observed a separation of chromosome territories from transcriptional condensates and nuclear speckles by the nuclear matrix. Based on our findings, we propose a topological model for the regulation of transcription across the nuclear matrix.Competing Interest StatementThe authors have declared no competing interest.