A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome
Reads0
Chats0
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
Citations
More filters
Posted ContentDOI
Reduced cellular levels of DNA polymerase delta alter replication dynamics and enzymology, and impair lagging-strand processing
TL;DR: It is proposed that replisomes with sub-stoichiometric Polδ are defective due to competition between nascent lagging-strand primers and terminating Okazaki fragments, and that this competition underlies both the replication and genome stability defects observed when cellular levels of Pol δ fall below a critical threshold.
Journal ArticleDOI
Swc4 protects nucleosome-free rDNA, tDNA and telomere loci to inhibit genome instability.
TL;DR: In this article , the authors show that DNA ploidy and chromosome segregation defects in baker's yeast Saccharomyces cerevisiae are independent of NuA4 or SWR1-C integrity.
Posted ContentDOI
Distinct chromosomal “niches” in the genome of S. cerevisiae provide the background for genomic innovation and shape the fate of gene duplicates
Athanasia Stavropoulou,Aimilios Tassios,M. Kalyva,Michalis Georgoulopoulos,Nikolaos Vakirlis,Ioannis Iliopoulos,Christoforos Nikolaou +6 more
TL;DR: It is proposed that specific regions of the yeast genome provide a favourable environment for the generation and maintenance of small-scale gene duplicates, and is suggested taking into account positional preferences in the study of gene emergence and fixation in experimentally and naturally evolving populations.
DissertationDOI
Mecanismos de regulación de la replicación en respuesta a estrés replicativo en Saccharomyces Cerevisiae
TL;DR: Esteban Cabanas Morafraile as discussed by the authors optar al grado de Doctor en Bioquimica por la Universidad de Salamanca (Universidad Nacional de Isabela, Spain) en el Instituto de Biologia Funcional y Genomica (IBFG), centro mixto de the Universidad of Salamanca, and del Consejo Superior de Investigaciones Cientificas (CSIC).
Book ChapterDOI
Molecular assays to investigate chromatin changes during DNA double-strand break repair in yeast.
TL;DR: Molecular techniques available to analyze chromatin architecture near a defined DSB in budding yeast are described and may be of value to experimentalists who are investigating the role of a novel protein in DSB repair specifically in the context of chromatin.
References
More filters
Journal ArticleDOI
Crystal structure of the nucleosome core particle at 2.8 Å resolution
TL;DR: The X-ray crystal structure of the nucleosome core particle of chromatin shows in atomic detail how the histone protein octamer is assembled and how 146 base pairs of DNA are organized into a superhelix around it.
Journal ArticleDOI
Twenty-Five Years of the Nucleosome, Fundamental Particle of the Eukaryote Chromosome
Roger D. Kornberg,Yahli Lorch +1 more
TL;DR: The chromatin field needs much more information about structure beyond the nucleosome, and there is insufficient evidence that acetylation actually causes chromatin unfolding, and functional analysis in cell-free systems must be extended beyond theucleosome to the chromosomal context.
Journal ArticleDOI
Dynamic Regulation of Nucleosome Positioning in the Human Genome
Dustin E. Schones,Kairong Cui,Suresh Cuddapah,Tae-Young Roh,Artem Barski,Zhibin Wang,Gang Wei,Keji Zhao +7 more
TL;DR: It is found that nucleosome phasing relative to the transcription start sites is directly correlated to RNA polymerase II (Pol II) binding and the first nucleosomes downstream of a start site exhibits differential positioning in active and silent genes.
Journal ArticleDOI
The structure of DNA in the nucleosome core
TL;DR: Comparison of the 147-base-pair structure with two 146- base-pair structures reveals alterations in DNA twist that are evidently common in bulk chromatin, and which are of probable importance for chromatin fibre formation and chromatin remodelling.
Journal ArticleDOI
The DNA-encoded nucleosome organization of a eukaryotic genome
Noam Kaplan,Irene K. Moore,Yvonne N. Fondufe-Mittendorf,Andrea J. Gossett,Desiree Tillo,Yair Field,Emily M LeProust,Timothy P. Hughes,Jason D. Lieb,Jonathan Widom,Eran Segal +10 more
TL;DR: The results indicate that the intrinsic DNA sequence preferences of nucleosomes have a central role in determining the organization ofucleosomes in vivo.