Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A chromosomal loop anchor mediates bacterial genome organization

ABSTRACT: A chromosomal loop anchor mediates bacterial genome organization

PROVIDER: PRJNA603750 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10985145.fastq.gz	Fastqsanger.gz
	SRR10985146.fastq.gz	Fastqsanger.gz
	SRR10985147.fastq.gz	Fastqsanger.gz
	SRR10985148.fastq.gz	Fastqsanger.gz
	SRR10985149.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 49

Similar Datasets

A chromosomal loop anchor mediates bacterial genome organization

Project description:Nucleoprotein complexes play an integral role in genome organization of both eukaryotes and prokaryotes. Apart from their role in locally structuring and compacting DNA, several complexes are known to influence global organization by mediating long-range anchored chromosomal loop formation leading to spatial segregation of large sections of DNA. Such megabase (Mb) range interactions are ubiquitous in eukaryotes, but have not been demonstrated in prokaryotes. Here, using a novel genome-wide sedimentation based approach, we found that a transcription factor, Rok, forms large nucleoprotein complexes in the bacterium Bacillus subtilis. Using chromosome conformation capture (Hi-C) and live-imaging of DNA loci, we show that these complexes robustly interact with each other over large distances. Importantly, these Rok dependent long-range interactions lead to anchored chromosomal loop formation, thereby spatially isolating large sections of DNA, as previously observed for insulator proteins in eukaryotes.

2021-11-14 | GSE144475 | GEO

Chromosomal loop engineering in human beta globin locus

Project description:Chromosomal loop engineering in human beta globin locus

| PRJNA673182 | ENA

Chromosomal loop engineering in human beta globin locus (ATAC-Seq)

Project description:Chromosomal loop engineering in human beta globin locus (ATAC-Seq)

| PRJNA673299 | ENA

Chromosomal loop engineering in human beta globin locus (Hi-C)

Project description:Chromosomal loop engineering in human beta globin locus (Hi-C)

| PRJNA673300 | ENA

Chromosomal loop engineering in human beta globin locus (RNA-Seq)

Project description:Chromosomal loop engineering in human beta globin locus (RNA-Seq)

| PRJNA673298 | ENA

Chromosomal loop engineering in human beta globin locus (ChIP-Seq)

Project description:Chromosomal loop engineering in human beta globin locus (ChIP-Seq)

| PRJNA673301 | ENA

Chromosomal loop engineering in human beta globin locus (CUT & RUN)

Project description:Chromosomal loop engineering in human beta globin locus (CUT & RUN)

| PRJNA673302 | ENA

Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils [RNA-seq]

Project description:The Structural Maintenance of Chromosome (SMC) protein complexes cohesin, condensin and the Smc5/6 complex (Smc5/6) are essential for chromosome function. At the molecular level, these complexes fold DNA by loop extrusion. Accordingly, cohesin creates chromosome loops in interphase, and condensin compacts mitotic chromosomes. However, the role of Smc5/6’s recently discovered DNA loop extrusion activity is unknown. Here, we uncover that Smc5/6 controls the spatial organization of supercoiled chromosomal regions. The results show that Smc5/6 associates with transcription-induced positively supercoiled chromosomal DNA at cohesin-dependent chromosome loop boundaries. Mechanistically, single-molecule imaging reveals that dimers of Smc5/6 specifically recognize the tip of positively supercoiled DNA plectonemes, and efficiently initiates loop extrusion to gather the supercoiled DNA into a large plectonemic loop. Finally, Hi-C analysis shows that Smc5/6 links chromosomal regions containing transcription-induced positive supercoiling in cis. Altogether, our findings indicate that Smc5/6 controls the three-dimensional organization of chromosomes by recognizing and initiating loop extrusion on positively supercoiled DNA.

2024-01-30 | GSE235559 | GEO