Genomics

Dataset Information

297

Histone 3 lysine 4 trimethylation (H3K4me3) ChIP in bas1 and ino4 mutants


ABSTRACT: Meiotic recombination is initiated by developmentally programmed DNA double-strand breaks (DSBs). In S. cerevisiae, the vast majority of DSBs occur in the nucleosome-depleted regions at gene promoters, where transcription factors (TFs) bind. It has been proposed that TF binding can stimulate DSB formation nearby by modulating local chromatin structure. However, a prior study in TF bas1 mutant suggested that the role of TF binding in determining break formation is complex. Here, we examined fine-scale DSB distributions in TF mutant (bas1Δ and ino4Δ) strains. In bas1Δ mutants, 239 out of the 2468 hotspots showed reduced DSB activity, whereas 87 hotspots showed increased DSB activity. Similarly, in ino4Δ mutant, 415 out of the 2468 hotspots showed reduced DSB activity, whereas 322 hotspots showed increased DSB activity. We also mapped Bas1 and Ino4 binding sites in meiosis and found that only a small portion of the affected hotspots contained TF binding sites. This indicates that TF can influence DSB distribution both directly and indirectly. Surprisingly, these DSB changes in TF mutants did not correlate with change in chromatin structure and histone H3K4me3 modification, suggesting that the role of TF on DSB distribution cannot be simply explained by affecting local chromatin status. Twelve samples total: four wild type, four bas1 mutant and four ino4 mutant (each an independent culture has one H3K4me3 ChIP sample and one H3 ChIP sample)

ORGANISM(S): Saccharomyces cerevisiae  

SUBMITTER: Xuan Zhu   Scott Keeney  Jeffrey Zhao 

PROVIDER: E-GEOD-67907 | ArrayExpress | 2015-08-21

SECONDARY ACCESSION(S): SRP057229GSE67907PRJNA281184

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

High-Resolution Global Analysis of the Influences of Bas1 and Ino4 Transcription Factors on Meiotic DNA Break Distributions in Saccharomyces cerevisiae.

Zhu Xuan X   Keeney Scott S  

Genetics 20150805 2


Meiotic recombination initiates with DNA double-strand breaks (DSBs) made by Spo11. In Saccharomyces cerevisiae, many DSBs occur in "hotspots" coinciding with nucleosome-depleted gene promoters. Transcription factors (TFs) stimulate DSB formation in some hotspots, but TF roles are complex and variable between locations. Until now, available data for TF effects on global DSB patterns were of low spatial resolution and confined to a single TF. Here, we examine at high resolution the contributions  ...[more]

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