Results 1 to 10 of about 1,452,122 (130)
Structural interplay between DNA-shape protein recognition and supercoiling: The case of IHF
Computational and Structural Biotechnology Journal, 2022 The integration host factor (IHF) is a prominent example of indirect readout as it imposes one of the strongest bends on relaxed linear DNA. However, the relation between IHF and torsionally constrained DNA, as occurs physiologically, remains unclear. By
Mark Leake, George D Watson, Agnes Noy
exaly +3 more sources
DNA supercoiling differences in bacteria result from disparate DNA gyrase activation by polyamines.
PLoS Genetics, 2020 DNA supercoiling is essential for all living cells because it controls all processes involving DNA. In bacteria, global DNA supercoiling results from the opposing activities of topoisomerase I, which relaxes DNA, and DNA gyrase, which compacts DNA. These
Alexandre Duprey, Eduardo A Groisman
doaj +2 more sources
Supercoiling and looping promote DNA base accessibility and coordination among distant sites
Nature Communications, 2021 DNA supercoiling can result in underwinding with negative supercoiling or overwinding with positive supercoiling of the DNA double helix. Here the authors reveal insights into the dynamic relationship between DNA supercoiling-induced sequence-dependent ...
Jonathan M. Fogg +4 more
doaj +1 more source
FEDS: a Novel Fluorescence-Based High-Throughput Method for Measuring DNA Supercoiling
mBio, 2020 DNA supercoiling (DS) is essential for life because it controls critical processes, including transcription, replication, and recombination. Current methods to measure DNA supercoiling in vivo are laborious and unable to examine single cells.
Alexandre Duprey, Eduardo A. Groisman
doaj +1 more source
High-resolution, genome-wide mapping of positive supercoiling in chromosomes
eLife, 2021 Supercoiling impacts DNA replication, transcription, protein binding to DNA, and the three-dimensional organization of chromosomes. However, there are currently no methods to directly interrogate or map positive supercoils, so their distribution in ...
Monica S Guo +4 more
doaj +1 more source
Hepatology, EarlyView., 2022 Adaptive mitochondrial mechanisms allow mitochondrial resilience and prevent the worsening of fibrosis, while deregulation of these mechanisms promotes the progression from no/minimal‐mild (F0‐F2) fibrosis to advanced fibrosis and cirrhosis (F3‐F4). Abstract Background and Aims Hepatitis B virus (HBV) infection causes oxidative stress (OS) and alters ...
Dimitri Loureiro +17 more
wiley +1 more source
A spatially resolved stochastic model reveals the role of supercoiling in transcription regulation.
PLoS Computational Biology, 2022 In Escherichia coli, translocation of RNA polymerase (RNAP) during transcription introduces supercoiling to DNA, which influences the initiation and elongation behaviors of RNAP.
Yuncong Geng +7 more
doaj +1 more source
Frontiers in Microbiology, 2023 Two enzymes are responsible for maintaining supercoiling in the human pathogen Streptococcus pneumoniae, gyrase (GyrA2GyrB2) and topoisomerase I. To attain diverse levels of topoisomerase I (TopoI, encoded by topA), two isogenic strains derived from wild-
Míriam García-López +4 more
doaj +1 more source
Nature Communications, 2022 In E. coli, disruption of TopoI and RNAP interaction decreases cells viability and leads to hypernegative DNA supercoiling and R loops accumulation. TopoI and DNA gyrase bind around transcription units and TopoI recognizes cleavage sites by a specific ...
Dmitry Sutormin +7 more
doaj +1 more source
Role of the Discriminator Sequence in the Supercoiling Sensitivity of Bacterial Promoters
mSystems, 2021 DNA supercoiling acts as a global transcriptional regulator that contributes to the rapid transcriptional response of bacteria to many environmental changes.
Raphaël Forquet +4 more
doaj +1 more source