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Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (MNase-seq)

ABSTRACT: Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (MNase-seq)

PROVIDER: PRJEB15184 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR1590154_1.fastq.gz	Fastqsanger.gz
	ERR1590154_2.fastq.gz	Fastqsanger.gz
	ERR1590155_1.fastq.gz	Fastqsanger.gz
	ERR1590155_2.fastq.gz	Fastqsanger.gz
	ERR1590156_1.fastq.gz	Fastqsanger.gz

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Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (SPO11-1-oligonucleotides-seq)

Project description:To determine meiotic recombination initiation sites in Arabidopsis thaliana genome we purified and sequenced oligonucleotides (35-45 nt) bound to SPO11-1, meiosis specific transesterase that induces meiotic DSB formation. This reveals that SPO11-1-oligonucleotide hotspots occur at nucleosome depleted regions of gene promoters, introns, terminators and specific families of DNA transposons (recomposons). To investigate the influence of chromatin structure and epigenetic factors on meiotic DSB formation we performed sequencing of SPO11-1-oligonucleotides in arp6, met1 and suvh4 suvh5 suvh6.

2017-06-05 | E-MTAB-5041 | biostudies-arrayexpress

Acetylation of histone H4 at lysine 44 facilitates meiotic recombination by creating accessible chromatin [Mnase-seq]

Project description:Meiotic recombination hotspots are associated with histone post-translational modifications and open chromatin. However, it remains unclear how histone modifications and chromatin structure directly regulate meiotic recombination. Here, we identify acetylation of histone H4 at Lys44 (H4K44ac) as a new histone modification, occurring on the nucleosomal lateral surface. We show that H4K44ac is specific to yeast sporulation, rising during yeast meiosis and displaying genome-wide enrichment at recombination hotspots in meiosis. The H4K44 residue is required for normal meiotic recombination, for normal levels of double strand breaks during meiosis, and for optimal sporulation. Non-modifiable substitution H4K44R results in reduced MNase digestion and decreased binding of recombination-associated proteins at hotspots. Our results show that H4K44ac creates an accessible chromatin environment for key proteins to facilitate meiotic recombination. Two samples, one WT MNase-seq and one MNase-seq from yeast with a lysine->arginine mutation at H4K44, no replicates Two replicates each of MNase-seq in WT and H4K44->R mutant yeast grown in YPD or YPA.

2015-12-07 | E-GEOD-59004 | biostudies-arrayexpress

Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (H3K4m3 ChIP-seq)

Project description:Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (H3K4m3 ChIP-seq)

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Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (H3K4m3 ChIP-seq)

Project description:To investigate the relationship between meiotic recombination initiation and H3K4m3 in Arabidopsis, we generated and sequenced H3K4m3 ChIP libraries from meiotic stage floral buds in wild type, arp6 and met1. To produce high-resolution of H3K4m3 mapping, we used micrococcal nuclease (MNase) to digest chromatins that were cross-linked by formaldehyde for ChIP. This experiment provides for H3K4m3 maps with the resolution of mononucleosomal DNA level (~150 bp).

2017-06-05 | E-MTAB-5048 | biostudies-arrayexpress

Acetylation of histone H4 at lysine 44 facilitates meiotic recombination by creating accessible chromatin [Mnase-seq]

2015-12-07 | GSE59004 | GEO

Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (SPO11-1-oligonucleotides-seq)

Project description:Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (SPO11-1-oligonucleotides-seq)

| PRJEB15185 | ENA

Meiotic recombination initiation hotspots in Arabidopsis genes and transposons (MNase-seq)

Project description:To analyse nucleosome positioning and occupancy we performed micrococcal nuclease digestion of Arabidopsis wild type (Col-0) chromatin and gel purified the resulting ~150 bp mononucleosomal DNA band. This DNA was used to generate a library and paired-end sequencing performed (MNase-seq). To further examine influence of SWR1 chromatin remodelling complex and DNA methylation on nucleosome occupancy, we repeated MNase-seq in Aarabidopsis arp6 and met1 mutant.

2017-06-05 | E-MTAB-5042 | biostudies-arrayexpress

Functional roles of Acetylated Histone Marks at Mouse Meiotic Recombination Hotspots (expression)

Project description:Meiotic recombination is initiated by the Spo11 endonuclease, which directs DNA double strand breaks at discrete regions in the genome coined hotspots. Here we report the profiles and dynamics of histone modifications at the cores of mouse recombination hotspots in early meiotic prophase. To define the spectrum of possible regulators of histone methylation and acetylation at all stages of meiosis I, expression analyses of histone acetylases/deacetylases (HATs/HDACs) and and HMTs/HDMTs genes when comparing those expressed in spermatogonia, pre-leptotene and leptotene/zygotene versus pachytene meiotic stages.

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Histone H3 lysine9 acetylation, rather than lysine4 trimethylation, marks meiotic recombination hotspots and promotes recombination initiation in fission yeast

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Acetylation of histone H4 at lysine 44 facilitates meiotic recombination by creating accessible chromatin [ChIP-seq]

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