DNA–protein crosslinks and their resolution

P Weickert, J Stingele - Annual Review of Biochemistry, 2022 - annualreviews.org
Covalent DNA–protein crosslinks (DPCs) are pervasive DNA lesions that interfere with
essential chromatin processes such as transcription or replication. This review strives to …

Detection, structure and function of modified DNA bases

A Hofer, ZJ Liu, S Balasubramanian - Journal of the American …, 2019 - ACS Publications
While some DNA base modifications such as 5-methylcytosine have been known and
studied for decades, recent discoveries of a number of other modified bases have stimulated …

5-Formylcytosine organizes nucleosomes and forms Schiff base interactions with histones in mouse embryonic stem cells

EA Raiber, G Portella, S Martínez Cuesta, R Hardisty… - Nature …, 2018 - nature.com
Nucleosomes are the basic unit of chromatin that help the packaging of genetic material
while controlling access to the genetic information. The underlying DNA sequence, together …

Human TDP1, APE1 and TREX1 repair 3′-DNA–peptide/protein cross-links arising from abasic sites in vitro

X Wei, Z Wang, C Hinson, K Yang - Nucleic acids research, 2022 - academic.oup.com
Histones and many other proteins react with abundant endogenous DNA lesions,
apurinic/apyrimidinic (abasic, AP) sites and/or 3′-phospho-α, β-unsaturated aldehyde (3 …

Induction of the alternative lengthening of telomeres pathway by trapping of proteins on DNA

AM Rose, T Goncalves, S Cunniffe… - Nucleic Acids …, 2023 - academic.oup.com
Telomere maintenance is a hallmark of malignant cells and allows cancers to divide
indefinitely. In some cancers, this is achieved through the alternative lengthening of …

DNA–histone cross-link formation via hole trapping in nucleosome core particles

T Wen, M Kermarrec, E Dumont, N Gillet… - Journal of the …, 2023 - ACS Publications
Radical cations (holes) produced in DNA by ionizing radiation and other oxidants yield DNA–
protein cross-links (DPCs). Detailed studies of DPC formation in chromatin via this process …

Methods for detection of cytosine and thymine modifications in DNA

M Berney, JF McGouran - Nature Reviews Chemistry, 2018 - nature.com
Methylation of cytosine at the 5-position is a common epigenetic modification in mammalian
DNA and plays an important role in regulating gene expression. Oxidized derivatives of 5 …

Trypanosoma brucei histones are heavily modified with combinatorial post-translational modifications and mark Pol II transcription start regions with hyperacetylated …

JP Maree, A Tvardovskiy, T Ravnsborg… - Nucleic Acids …, 2022 - academic.oup.com
Trypanosomes diverged from the main eukaryotic lineage about 600 million years ago, and
display some unusual genomic and epigenetic properties that provide valuable insight into …

1, 3‐Diketone‐Modified Nucleotides and DNA for Cross‐Linking with Arginine‐Containing Peptides and Proteins

DL Leone, M Hubálek, R Pohl, V Sýkorová… - Angewandte …, 2021 - Wiley Online Library
Abstract Linear or branched 1, 3‐diketone‐linked thymidine 5′‐O‐mono‐and triphosphate
were synthesized through CuAAC click reaction of diketone‐alkynes with 5‐azidomethyl …

Mechanisms of DNA− protein cross-link formation and repair

X Wei, Y Peng, C Bryan, K Yang - … et Biophysica Acta (BBA)-Proteins and …, 2021 - Elsevier
Covalent binding of DNA to proteins produces DNA− protein cross-links (DPCs). DPCs are
formed as intermediates of enzymatic processes, generated from the reactions of protein …