Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment (Hi-C, Cut&Tag, RNA-seq)

ABSTRACT: Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment (Hi-C, Cut&Tag, RNA-seq)

PROVIDER: PRJNA656240 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12421168_1.fastq.gz	Fastqsanger.gz
	SRR12421168_2.fastq.gz	Fastqsanger.gz
	SRR12421172_1.fastq.gz	Fastqsanger.gz
	SRR12421172_2.fastq.gz	Fastqsanger.gz
	SRR12421173_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 45

Similar Datasets

Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment

Project description:During meiosis, chromosomes undergo extensive changes in structure and intranuclear positioning. How these chromosome organization changes occur and how they influence meiosis-specific chromosome events are not fully understood. Using Hi-C, we characterized chromosome architecture throughout mouse spermatogenesis at high temporal resolution. Our study revealed an intimate link between chromosome organization features and homolog pairing and alignment. We found that the meiotic chromosomes progressively reshape from TAD-like domains into linearly arranged loop arrays during prophase I. The transcriptionally active and inactive genomic regions exhibit distinct dynamics of loop growth, resulting in alternating domains consisting of shorter and longer chromosome loops. Such a domanial organization along meiotic chromosome axes is tightly correlated with the strength and precision of inter-homolog alignment. We further showed that a significant fraction of chromosomes near chromosome ends exhibit elevated inter-chromosomal association upon entering zygotene stage, while also exhibiting a higher degree of inter-homolog alignment. Using a mouse model defective in LINC complex component SUN1, we demonstrated that the prominent alignment of chromosome ends is dependent on the association of telomeres with the mechano-transducing LINC complex, but not the tethering of telomeres to the nuclear periphery. Taken together, our results suggest the 3D chromosome organization may provide a structural framework for the regulation of meiotic chromosome processes in higher eukaryotes.

2021-08-25 | GSE155638 | GEO

Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment (Hi-C, Cut&Tag, RNA-seq)

2021-08-25 | GSE155967 | GEO

Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment

Project description:Stage-resolved genome architecture maps throughout meiotic prophase link regional variations in chromosome organization with homolog alignment

| PRJNA650530 | ENA

Dynamic Reorganization of the Genome Shapes the Recombination Landscape in Meiotic Prophase

Project description:In meiotic prophase, chromosomes are organized into compacted loop arrays to promote homolog pairing and recombination. Here, we probe the architecture of the mouse spermatocyte genome in early and late meiotic prophase using Hi-C. We show that early-prophase chromosomes are arranged as linear arrays of 0.8-1 Mb loops, which extend to 1.5-2 Mb in late prophase as chromosomes compact and homologs undergo synapsis. Topologically associating domains (TADs) are lost in meiotic prophase, suggesting that assembly of the meiotic chromosome axis dramatically reduces the dynamics of chromosome-associated cohesin complexes. While TADs are lost, physically-separated A and B compartments are maintained in meiotic prophase. Moreover, meiotic DNA breaks and inter-homolog crossovers preferentially form in the gene-dense A compartment, revealing a role for chromatin organization in meiotic recombination. Finally, direct detection of inter-homolog contacts genome-wide reveals the structural basis for homolog alignment and juxtaposition by the synaptonemal complex.

2018-11-17 | GSE122622 | GEO

MEIOC interacting proteins during meiotic prophase I

Project description:The meiosis-specific chromosomal events of homolog pairing, synapsis, and recombination occur over an extended meiotic prophase I. In this study, we show that, in mice, maintenance of an extended meiotic prophase I requires the gene Meioc, a germ-cell specific factor conserved in most metazoans. Using immunoprecipitation and quantitative mass spectrometry, we identify proteins that interact with MEIOC in the mouse germ line.

2017-03-27 | PXD005473 | Pride

The SUN1-SPDYA interaction plays an essential role in meiosis prophase I

Project description:Chromosomes pair and synapse with their homologous partners to segregate correctly at meiosis I. Association of telomeres with the LINC (Linker of Nucleoskeleton and Cytoskeleton) complex enables telomere-led chromosome movements and telomere bouquet formation, facilitating precise pairwise alignment of homologs. Here, we identify a direct interaction between SUN1 and Speedy A (SPDYA) and determine the crystal structure of human SUN1-SPDYA-CDK2 ternary complex. Analysis of meiosis prophase I process in SPDYA-binding-deficient SUN1 mutant mice reveals that the SUN1-SPDYA interaction is required for the telomere-LINC complex connection and the assembly of a ring-shaped telomere supramolecular architecture at the nuclear envelope, which is critical for efficient homologous pairing and synapsis. Overall, our results provide structural insights into meiotic telomere structure that is essential for meiotic prophase progression.

2021-04-08 | GSE155142 | GEO

RNA-seq read alignment evaluation

Project description:RNA-seq read alignment evaluation

| PRJEB4265 | ENA

Transcriptome analysis of meiotic prophase spermatocytes in Zfp541 +/- and Zfp541 KO mice

Project description:ZFP541 is one of the candidates for a transcriptional regulator during mouse meiotic prophase. In order to address the role of ZFP541, transcriptomes of meiotic prophase-enriched population were compared between Zfp541 +/- and Zfp541 KO testes by RNA-seq. The meiotic prophase-enriched population was isolated from Zfp541 +/- and Zfp541 KO testes at postnatal day 18 (P18), on the Rec8-3FH-GFP KI background by fluorescent sorting of GFP positive cells.

2020-12-29 | GSE163917 | GEO

Protists RNA-Seq alignment

Project description:The protists genomics RNA-Seq identification, alignment and visualisation pipeline

| PRJEB15488 | ENA

Plant RNA-Seq alignment

Project description:The crop genomics RNA-Seq identification, alignment and visualisation pipeline

| PRJEB12852 | ENA