Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide Map of R-loop Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

ABSTRACT: Genome-wide Map of R-loop Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

PROVIDER: PRJNA787109 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17167464_1.fastq.gz	Fastqsanger.gz
	SRR17167464_2.fastq.gz	Fastqsanger.gz
	SRR17167465_1.fastq.gz	Fastqsanger.gz
	SRR17167465_2.fastq.gz	Fastqsanger.gz
	SRR17167466_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Genome-wide Map of R-loop Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

Project description:R-loop is a three-strand nucleic acid structure composed of mRNA and DNA. In mammalian meiotic cells, R-loop mainly distributed at promoter-related regions, and combined with systematically transcriptome analysis showed R-loop was closely related to transcription in meiotic process. Moreover, knockout of Rnaseh1 in meiotic cells caused mice completely sterile with R-loop accumulation and abnormal DSB repairing in spermatocytes. Further analysis showed R-loop accumulation in leptotene/zygotene influenced transcriptional regulation in pachytene stage. Thus, mutual regulation of R-loop and transcription plays essential role in spermatogenesis.

2023-09-21 | GSE190430 | GEO

Genome-wide Map of R-loops Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

Project description:R-loop is a naturally formed three-strand nucleic acid structure that was reported to take part in multiple biological processes. In our study, we firstly mapped R-loop genomic distribution in mammalian meiotic cells by genome-wide S9.6 CUT & Tag seq. R-loop mainly distributed at promoter-related regions, and combined with systematically transcriptome analysis showed R-loop was closely related to transcription in the meiotic process. Moreover, we verified the conclusion by constructing conditional knockout mice of Rnaseh1, which delete the R-loop endonuclease before meiosis entry. Lack of RNase H1 caused mice completely sterile with R-loop accumulation and abnormal DSB repairing in spermatocytes. Further analysis showed R-loop accumulation in leptotene/zygotene influenced transcriptional regulation in the pachytene stage. Thus, mutual regulation of R-loop and transcription plays an essential role in spermatogenesis.

2023-02-01 | GSE193401 | GEO

Genome-wide Map of R-loops Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

Project description:Genome-wide Map of R-loops Reveals its interplays with Transcription and Genome Integrity during Germ Cell Meiosis

| PRJNA796035 | ENA

R-loop landscapes in yeast meiosis

Project description:R-loop landscapes in yeast meiosis

| PRJNA705491 | ENA

R-loop landscapes in yeast meiosis

Project description:Meiotic recombination is initiated by the Spo11-dependent programmed DNA double-strand breaks (DSBs) that are preferentially concentrated within genomic regions known as hotspots, but the factor(s) which specify the positions for meiotic DSB hotspots remain unclear. Here, we show that the frequency and distribution of R-loops, a type of functional chromatin structure comprising single-stranded DNA and a DNA:RNA hybrid, change dramatically throughout meiosis. We detected the formation of multiple de novo R-loops in the pachytene stage, and found they co-localize with meiotic DSB hotspots. We further show that transcription-replication head-on collisions could promote R-loop formation during meiosis, and apparently direct the initiation of meiotic DSB formation. Furthermore, the hotspots can be eliminated by reverse the direction of either transcription or replication, and reconstituted by reverse both of their direction. Our study reveals that R-loops may play dual roles in meiotic recombination. In addition to participation in meiotic DSB processing, some meiotic DSB hotspots may be originated from the transcription-replication head-on collisions during meiotic DNA replication.

2023-05-14 | GSE167915 | GEO

BRCA1 maintains telomere integrity through suppression of TERRA RNA and TERRA R-loop-induced DNA damage

Project description:Data in support of Vohhodina et al. "BRCA1 maintains telomere integrity through suppression of TERRA RNA and TERRA R-loop-induced DNA damage"

2021-04-21 | MSV000087276 | MassIVE

Genome-wide map of R-loops reveals its interplay with transcription and genome integrity during germ cell meiosis.

Project description:IntroductionThe R-loop is a naturally formed three-strand nucleic acid structure that recently has been reported to participate in multiple biological processes and helped answer some previously unexplained scientific questions. Meiosis process involves multiple chromatin-related events such as DNA double-stranded breaks (DSB) formation, repairing and transcriptional dynamics.ObjectivesExplore the regulatory roles and physiological functions of R-loops in the mammalian meiosis process.MethodsIn our study, using genome-wide S9.6 CUT & Tag seq, we first mapped the genomic distribution and dynamic changes of R-loop during the meiotic process in mice, from spermatogonia to secondary spermatocytes. And we further explore the role of R-loop in physiological conditions by constructing conditional knockout mice of Rnaseh1, which deleted the R-loop endonuclease before meiosis entry.ResultsR-loop predominantly distributes at promoter-related regions and varies across different meiotic stages. By joint analysis with the corresponding transcriptome, we found that the R-loop was closely related to transcription during the meiotic process. The high frequency of promoter-related R-loop in meiotic cells is usually accompanied by high transcription activity, and we further verified this in the leptotene/zygotene to the pachytene transition process. Moreover, the lack of RNase H1 caused sterility in male mice with R-loop accumulation and abnormal DSB repair in spermatocytes. Further analysis showed that abnormal R-loop accumulation in the leptotene/zygotene stages influenced transcriptional regulation in the pachytene stage.ConclusionThe mutual regulation of the R-loop and transcription plays an essential role in spermatogenesis. And R-loop is also important for the normal repair process of DSB during meiosis.

| S-EPMC10491972 | biostudies-literature

Spo13/MEIKIN ensures a two-division meiosis by preventing the activation of APC/CAma1 at meiosis I

Project description:Genome haploidization at meiosis depends on two consecutive nuclear divisions, which are controlled by an oscillatory system consisting of Cdk1-cyclin B and the APC/C bound to the Cdc20 activator. How the oscillator generates exactly two divisions has been unclear. We have studied this question in yeast where exit from meiosis involves accumulation of the APC/C activator Ama1 at meiosis II. We show that inactivation of the meiosis I-specific protein Spo13/MEIKIN results in a single-division meiosis due to premature activation of APC/CAma1. In the wild-type, Spo13 bound to the polo-like kinase Cdc5 prevents Ama1 synthesis at meiosis I by stabilizing the translational repressor Rim4. In addition, Cdc5-Spo13 inhibits the activity of Ama1 by converting the B-type cyclin Clb1 from a substrate to an inhibitor of Ama1. Cdc20-dependent degradation of Spo13 at anaphase I unleashes a feedback loop that increases Ama1’s synthesis and activity, leading to irreversible exit from meiosis at the second division. Thus, by repressing the exit machinery at meiosis I, Cdc5-Spo13 ensures that cells undergo two divisions to produce haploid gametes.

2023-09-03 | PXD044597 | Pride

REXO5 Promotes Genomic Integrity Through Regulating R-loop Using Its Exonuclease Activity.

Project description:REXO5 Promotes Genomic Integrity Through Regulating R-loop Using Its Exonuclease Activity.

| PRJNA1117408 | ENA

Establishment of chromatin architecture interplays with embryo hypertranscription

Project description:Establishment of chromatin architecture interplays with embryo hypertranscription

| PRJNA824060 | ENA