Osmotic disruption of chromatin induces Topoisomerase 2 activity at sites of transcriptional stress [PDF]
Nature CommunicationsTranscription generates superhelical stress in DNA that poses problems for genome stability, but determining when and where such stress arises within chromosomes is challenging. Here, using G1-arrested S.
William H. Gittens +4 more
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DNA spontaneously wrapping around a histone core prefers negative supercoiling: A Brownian dynamics study. [PDF]
PLoS Computational BiologyIn eukaryotes, DNA achieves a highly compact structure primarily due to its winding around the histone cores. The nature wrapping of DNA around histone core form a 1.7 left-handed superhelical turns, contributing to negative supercoiling in chromatin ...
Chunhong Long, Hongqiong Liang, Biao Wan
doaj +2 more sources
BMC Bioinformatics, 2006 Background In our previous studies, we found that the sites in prokaryotic genomes which are most susceptible to duplex destabilization under the negative superhelical stresses that occur in vivo are statistically highly significantly associated with ...
Benham Craig J, Wang Huiquan
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Cryo-EM Analysis of a Unique Subnucleosome Containing Centromere-Specific Histone Variant CENP-A. [PDF]
Genes CellsCryo‐EM structure of the CENP‐A–H4 octasome, which lacks H2A‐H2B, was determined at 3.66 Å. The CENP‐A–H4 octasome contains twice the amount of CENP‐A compared to the canonical CENP‐A nucleosome. It may play a role in kinetochore assembly by recruiting centromere‐specific proteins during mitosis.
Kawasaki O +4 more
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Differential effect of supercoiling on bacterial transcription in topological domains. [PDF]
PLoS Computational BiologyDNA supercoiling (SC), the over- and under-winding of DNA, is generated by transcription as described in the twin-domain model. Conversely, SC also impacts transcription through torsional stress.
Boaz Goldberg +3 more
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Susceptibility to superhelically driven DNA duplex destabilization: a highly conserved property of yeast replication origins. [PDF]
PLoS Computational Biology, 2005 Strand separation is obligatory for several DNA functions, including replication. However, local DNA properties such as A+T content or thermodynamic stability alone do not determine the susceptibility to this transition in vivo.
Prashanth Ak, Craig J Benham
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Torsional stress can regulate the unwrapping of two outer half superhelical turns of nucleosomal DNA
Proceedings of the National Academy of Sciences of the United States of America, 2021 Significance The torsional stress to chromatin structure plays an important role in eukaryotic cell where DNA-binding proteins such as RNA polymerase and chromatin remodeling complexes actively apply torsional stress.
H. Ishida, H. Kono
semanticscholar +1 more source
Supercoiling and looping promote DNA base accessibility and coordination among distant sites
Nature Communications, 2021 DNA in cells is supercoiled and constrained into loops and this supercoiling and looping influence every aspect of DNA activity. We show here that negative supercoiling transmits mechanical stress along the DNA backbone to disrupt base pairing at ...
J. Fogg +4 more
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Supercoiling Effects on Short-Range DNA Looping in E. coli. [PDF]
PLoS ONE, 2016 DNA-protein loops can be essential for gene regulation. The Escherichia coli lactose (lac) operon is controlled by DNA-protein loops that have been studied for decades.
Lauren S Mogil +2 more
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Superhelical duplex destabilization and the recombination position effect. [PDF]
PLoS ONE, 2011 The susceptibility to recombination of a plasmid inserted into a chromosome varies with its genomic position. This recombination position effect is known to correlate with the average G+C content of the flanking sequences.
Cheryl L Sershen +3 more
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