Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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

PROVIDER: PRJNA986465 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR24991188.fastq.gz	Fastqsanger.gz
	SRR24991189.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils.

Project description:Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils.

| PRJNA986453 | ENA

Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils [Hi-C]

Project description:Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils [Hi-C]

| PRJNA986466 | ENA

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

Project description:Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils [ChIP-seq]

| PRJNA986462 | 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

Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils [Hi-C]

2024-01-30 | GSE235558 | GEO

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

2024-01-30 | GSE235557 | GEO

Loop-extruding Smc5/6 organizes transcription-induced positive DNA supercoils.

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-01-30 | GSE235560 | GEO

Human Smc5/6 recognizes transcription-generated positive DNA supercoils

Project description:Human Smc5/6 recognizes transcription-generated positive DNA supercoils

| PRJNA963774 | ENA

Cohesin supercoils DNA during loop extrusion

Project description:Cohesin supercoils DNA during loop extrusion

| PRJNA1240266 | ENA

Human Smc5/6 recognizes transcription-generated positive DNA supercoils

Project description:Beyond its essential roles in ensuring faithful chromosome segregation and genomic stability, the human Smc5/6 complex acts as an antiviral factor. It binds to and impedes the transcription of extrachromosomal DNA templates; an ability which is lost upon chromosomal DNA integration. How the complex distinguishes among different DNA templates is unknown. Here we show that, in human cells, Smc5/6 preferentially binds to circular rather than linear extrachromosomal DNA. We further show that this binding is unlikely due to differences in the chromatin composition. Instead, the transcriptional process, per se, and more specifically the accumulation of DNA secondary structures known to be substrates for topoisomerases, is responsible for Smc5/6 recruitment. Those findings, in conjunction with our genome-wide Smc5/6 binding analysis showing that Smc5/6 localises at few but highly transcribe chromosome loci, reveal a previously unforeseen role of Smc5/6 in DNA topology management during transcription.

2024-06-10 | GSE231328 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data