ArticleThe EMBO journal2000
Destabilization of nucleosomes by an unusual DNA conformation adopted by poly(dA) small middle dotpoly(dT) tracts in vivo.
Article in The EMBO journal, 2000. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Sequence-Dependent Shape and Stiffness of DNA and RNA Double Helices: Hexanucleotide Scale and Beyond.Journal of chemical information and modeling · 2025Article
- Mapping short tandem repeats for liver gene expression traits helps prioritize potential causal variants for complex traits in pigs.Journal of animal science and biotechnology · 2022Article
- MNase, as a probe to study the sequence-dependent site exposures in the +1 nucleosomes of yeast.Nucleic acids research · 2018Article
- Article
- Predictive Models of Recombination Rate Variation across the Drosophila melanogaster Genome.Genome biology and evolution · 2016Article
- Sequence-directed nucleosome-depletion is sufficient to activate transcription from a yeast core promoter in vivo.Biochemical and biophysical research communications · 2016Article
- Abundance, arrangement, and function of sequence motifs in the chicken promoters.BMC genomics · 2014Article
- Telomeric repeats act as nucleosome-disfavouring sequences in vivo.Nucleic acids research · 2014Article
- Conformational and thermodynamic hallmarks of DNA operator site specificity in the copper sensitive operon repressor from Streptomyces lividans.Nucleic acids research · 2014Article
- Non-LTR retrotransposons and microsatellites: Partners in genomic variation.Mobile genetic elements · 2013Review
- Nonhistone Scm3 binds to AT-rich DNA to organize atypical centromeric nucleosome of budding yeast.Molecular cell · 2011Article
- Article
- Somatic mutation and functional polymorphism of a novel regulatory element in the HGF gene promoter causes its aberrant expression in human breast cancer.The Journal of clinical investigation · 2009Article
- Poly(dA:dT) tracts: major determinants of nucleosome organization.Current opinion in structural biology · 2009Review
- A nucleosome positioned by alpha2/Mcm1 prevents Hap1 activator binding in vivo.Biochemical and biophysical research communications · 2007Article
- Exposing the core promoter is sufficient to activate transcription and alter coactivator requirement at RNR3.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Article
- Effect of sequence-directed nucleosome disruption on cell-type-specific repression by alpha2/Mcm1 in the yeast genome.Eukaryotic cell · 2006Article
- Reversible B/Z-DNA transition under the low salt condition and non-B-form polydApolydT selectivity by a cubane-like europium-L-aspartic acid complex.Biophysical journal · 2006Article
- Homopolymer tract length dependent enrichments in functional regions of 27 eukaryotes and their novel dependence on the organism DNA (G+C)% composition.BMC genomics · 2004Article
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Poly(dA) small middle dotpoly(dT) tracts are common and often found upstream of genes in eukaryotes. It has been suggested that poly(dA) small middle dotpoly(dT) promotes transcription in vivo by affecting nucleosome formation. On the other hand, in vitro studies show that poly(dA) small middle dotpoly(dT) can be easily incorporated into nucleosomes. Therefore, the roles of these tracts in nucleosome organization in vivo remain to be established. We have developed an assay system that can evaluate nucleosome formation in yeast cells, and demonstrated that relatively longer tracts such as A(15)TATA(16) and A(34) disrupt an array of positioned nucleosomes, whereas a shorter A(5)TATA(4) tract is incorporated in positioned nucleosomes of yeast minichromosomes. Thus, nucleosomes are destabilized by poly(dA) small middle dotpoly(dT) in vivo in a length-dependent manner. Furthermore, in vivo UV footprinting revealed that the longer tracts adopt an unusual DNA structure in yeast cells that corresponds to the B' conformation described in vitro. Our results support a mechanism in which a unique poly(dA) small middle dot poly(dT) conformation presets chromatin structure to which transcription factors are accessible.
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