A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome
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TLDR
Six high-resolution genome-wide maps of Saccharomyces cerevisiae nucleosome positions from multiple labs and detection platforms are compiled, and new insights are reported.Abstract:
Nucleosomes have position-specific functions in controlling gene expression. A complete systematic genome-wide reference map of absolute and relative nucleosome positions is needed to minimize potential confusion when referring to the function of individual nucleosomes (or nucleosome-free regions) across datasets. We compiled six high-resolution genome-wide maps of Saccharomyces cerevisiae nucleosome positions from multiple labs and detection platforms, and report new insights. Data downloads, reference position assignment software, queries, and a visualization browser are available online http://atlas.bx.psu.edu/.read more
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ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity
Matthew D. Young,Tracy A. Willson,Matthew Wakefield,Evelyn Trounson,Douglas J. Hilton,Marnie E. Blewitt,Alicia Oshlack,Ian J. Majewski +7 more
TL;DR: This work has used ChIP-seq to generate genome-wide maps of H3K27me3 enrichment, and has identified three enrichment profiles with distinct regulatory consequences, including an enrichment profile with a peak in the promoter of genes that is associated with active transcription.
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Intrinsic coupling of lagging-strand synthesis to chromatin assembly
TL;DR: This study shows that ligation-competent Okazaki fragments in Saccharomyces cerevisiae are sized according to the nucleosome repeat, and reveals the interconnection between lagging-strand synthesis and chromatin assembly.
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Genomic Nucleosome Organization Reconstituted with Pure Proteins
Nils Krietenstein,Megha Wal,Shinya Watanabe,Bongsoo Park,Craig L. Peterson,B. Franklin Pugh,Philipp Korber +6 more
TL;DR: This work reconstitutes four stages of nucleosome architecture using purified components: yeast genomic DNA, histones, sequence-specific Abf1/Reb1, and remodelers RSC, ISW2, INO80, and ISW1a, and establishes core mechanisms by which promoter chromatin architecture arises through a blend of redundancy and specialization.
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Lagging-strand replication shapes the mutational landscape of the genome
Martin A M Reijns,Harriet Kemp,James Ding,Sophie Marion de Procé,Andrew P. Jackson,Martin S. Taylor +5 more
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Fine-scale variation in meiotic recombination in Mimulus inferred from population shotgun sequencing
Uffe Hellsten,Kevin M. Wright,Jerry Jenkins,Shengqiang Shu,Yao-Wu Yuan,Susan R. Wessler,Jeremy Schmutz,John H. Willis,Daniel S. Rokhsar,Daniel S. Rokhsar +9 more
TL;DR: The general pattern is similar to that observed in yeast, as well as in positive-regulatory domain zinc finger protein 9–knockout mice, suggesting that recombination initiation described here in Mimulus may reflect ancient and conserved eukaryotic mechanisms.
References
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