Dynamic alternative DNA structures in biology and disease

G Wang, KM Vasquez - Nature Reviews Genetics, 2023 - nature.com
Repetitive elements in the human genome, once considered 'junk DNA', are now known to
adopt more than a dozen alternative (that is, non-B) DNA structures, such as self-annealed …

DNA secondary structures: stability and function of G-quadruplex structures

ML Bochman, K Paeschke, VA Zakian - Nature Reviews Genetics, 2012 - nature.com
In addition to the canonical double helix, DNA can fold into various other inter-and
intramolecular secondary structures. Although many such structures were long thought to be …

The mechanism of double-strand DNA break repair by the nonhomologous DNA end-joining pathway

MR Lieber - Annual review of biochemistry, 2010 - annualreviews.org
Double-strand DNA breaks are common events in eukaryotic cells, and there are two major
pathways for repairing them: homologous recombination (HR) and nonhomologous DNA …

Non-B DNA structure-induced genetic instability and evolution

J Zhao, A Bacolla, G Wang, KM Vasquez - Cellular and molecular life …, 2010 - Springer
Repetitive DNA motifs are abundant in the genomes of various species and have the
capacity to adopt non-canonical (ie, non-B) DNA structures. Several non-B DNA structures …

Molecular mechanisms and topological consequences of drastic chromosomal rearrangements of muntjac deer

Y Yin, H Fan, B Zhou, Y Hu, G Fan, J Wang… - Nature …, 2021 - nature.com
Muntjac deer have experienced drastic karyotype changes during their speciation, making it
an ideal model for studying mechanisms and functional consequences of mammalian …

S1-END-seq reveals DNA secondary structures in human cells

G Matos-Rodrigues, N van Wietmarschen, W Wu… - Molecular cell, 2022 - cell.com
DNA becomes single stranded (ssDNA) during replication, transcription, and repair.
Transiently formed ssDNA segments can adopt alternative conformations, including …

Non-B DNA conformations, mutagenesis and disease

RD Wells - Trends in biochemical sciences, 2007 - cell.com
Recent discoveries have revealed that simple repeating DNA sequences, which are known
to adopt non-B DNA conformations (such as triplexes, cruciforms, slipped structures, left …

Replication stalling at unstable inverted repeats: interplay between DNA hairpins and fork stabilizing proteins

I Voineagu, V Narayanan… - Proceedings of the …, 2008 - National Acad Sciences
DNA inverted repeats (IRs) are hotspots of genomic instability in both prokaryotes and
eukaryotes. This feature is commonly attributed to their ability to fold into hairpin-or cruciform …

Impact of alternative DNA structures on DNA damage, DNA repair, and genetic instability

G Wang, KM Vasquez - DNA repair, 2014 - Elsevier
Repetitive genomic sequences can adopt a number of alternative DNA structures that differ
from the canonical B-form duplex (ie non-B DNA). These non-B DNA-forming sequences …

Translocation and deletion breakpoints in cancer genomes are associated with potential non-B DNA-forming sequences

A Bacolla, JA Tainer, KM Vasquez… - Nucleic acids …, 2016 - academic.oup.com
Gross chromosomal rearrangements (including translocations, deletions, insertions and
duplications) are a hallmark of cancer genomes and often create oncogenic fusion genes …