Major nuclear locales define nuclear genome organization and function beyond A and B compartments DOI Creative Commons
Omid Gholamalamdari, Tom van Schaik, Yuchuan Wang

et al.

eLife, Journal Year: 2025, Volume and Issue: 13

Published: April 25, 2025

Models of nuclear genome organization often propose a binary division into active versus inactive compartments yet typically overlook bodies. Here, we integrated analysis sequencing and image-based data to compare in four human cell types relative three different locales: the lamina, speckles, nucleoli. Although gene expression correlates mostly with speckle proximity, DNA replication timing proximity multiple locales. Speckle attachment regions emerge as initiation zones whose composition vary their frequency. Most facultative LADs retain partially repressed state iLADs, despite positioning interior. Knock out two lamina proteins, Lamin A LBR, causes shift H3K9me3-enriched from nucleolus, reciprocal relocation H3K27me3-enriched iLADs nucleolus lamina. Thus, these appear compete for consequences timing. The adherent cells is polarized bodies genomic segregating both radially equatorial plane. Together, our results underscore importance considering locales more complete understanding spatial functional genome.

Language: Английский

Beyond A and B Compartments: how major nuclear locales define nuclear genome organization and function DOI Open Access
Omid Gholamalamdari, Tom van Schaik, Yuchuan Wang

et al.

Published: March 25, 2025

Models of nuclear genome organization often propose a binary division into active versus inactive compartments yet typically overlook bodies. Here we integrated analysis sequencing and image-based data to compare in four human cell types relative three different locales: the lamina, speckles, nucleoli. Whereas gene expression correlates mostly with speckle proximity, DNA replication timing proximity multiple locales. Speckle attachment regions emerge as initiation zones whose composition vary their frequency. Most facultative LADs retain partially repressed state iLADs, despite positioning interior. Knock out two lamina proteins, Lamin A LBR, causes shift H3K9me3-enriched from nucleolus, reciprocal relocation H3K27me3-enriched iLADs nucleolus lamina. Thus, these appear compete for consequences timing. The adherent cells is polarized bodies genomic segregating both radially equatorial plane. Together, our results underscore importance considering locales more complete understanding spatial functional genome.

Language: Английский

Citations

0
Major nuclear locales define nuclear genome organization and function beyond A and B compartments DOI Creative Commons
Omid Gholamalamdari, Tom van Schaik, Yuchuan Wang

et al.

eLife, Journal Year: 2025, Volume and Issue: 13

Published: April 25, 2025

Models of nuclear genome organization often propose a binary division into active versus inactive compartments yet typically overlook bodies. Here, we integrated analysis sequencing and image-based data to compare in four human cell types relative three different locales: the lamina, speckles, nucleoli. Although gene expression correlates mostly with speckle proximity, DNA replication timing proximity multiple locales. Speckle attachment regions emerge as initiation zones whose composition vary their frequency. Most facultative LADs retain partially repressed state iLADs, despite positioning interior. Knock out two lamina proteins, Lamin A LBR, causes shift H3K9me3-enriched from nucleolus, reciprocal relocation H3K27me3-enriched iLADs nucleolus lamina. Thus, these appear compete for consequences timing. The adherent cells is polarized bodies genomic segregating both radially equatorial plane. Together, our results underscore importance considering locales more complete understanding spatial functional genome.

Language: Английский

Citations

0