Active turnover of DNA methylation during cell fate decisions

A Parry, S Rulands, W Reik - Nature Reviews Genetics, 2021 - nature.com
DNA methylation is a key layer of epigenetic regulation. The deposition of methylation marks
relies on the catalytic activity of DNA methyltransferases (DNMTs), and their active removal …

Evaluating enhancer function and transcription

A Field, K Adelman - Annual review of biochemistry, 2020 - annualreviews.org
Cell-type-and condition-specific profiles of gene expression require coordination between
protein-coding gene promoters and cis-regulatory sequences called enhancers. Enhancers …

[HTML][HTML] A cis-regulatory atlas in maize at single-cell resolution

AP Marand, Z Chen, A Gallavotti, RJ Schmitz - Cell, 2021 - cell.com
Summary cis-regulatory elements (CREs) encode the genomic blueprints of spatiotemporal
gene expression programs enabling highly specialized cell functions. Using single-cell …

[HTML][HTML] Conserved pleiotropy of an ancient plant homeobox gene uncovered by cis-regulatory dissection

A Hendelman, S Zebell, D Rodriguez-Leal, N Dukler… - Cell, 2021 - cell.com
Divergence of gene function is a hallmark of evolution, but assessing functional divergence
over deep time is not trivial. The few alleles available for cross-species studies often fail to …

[HTML][HTML] Transcription factors and evolution: an integral part of gene expression

T Mitsis, A Efthimiadou… - World …, 2020 - build.spandidos-publications.com
Gene expression is a complex process that is essential to living organisms. Gene
expression plays the important role of converting information that is encoded in a gene into a …

Deep cis-regulatory homology of the butterfly wing pattern ground plan

A Mazo-Vargas, AM Langmüller, A Wilder… - Science, 2022 - science.org
Butterfly wing patterns derive from a deeply conserved developmental ground plan yet are
diverse and evolve rapidly. It is poorly understood how gene regulatory architectures can …

A Kuhnian revolution in molecular biology: Most genes in complex organisms express regulatory RNAs

JS Mattick - Bioessays, 2023 - Wiley Online Library
Thomas Kuhn described the progress of science as comprising occasional paradigm shifts
separated by interludes of 'normal science'. The paradigm that has held sway since the …

Snake venom gene expression is coordinated by novel regulatory architecture and the integration of multiple co-opted vertebrate pathways

BW Perry, SS Gopalan, GIM Pasquesi… - Genome …, 2022 - genome.cshlp.org
Understanding how regulatory mechanisms evolve is critical for understanding the
processes that give rise to novel phenotypes. Snake venom systems represent a valuable …

[HTML][HTML] Evolution of mouse circadian enhancers from transposable elements

J Judd, H Sanderson, C Feschotte - Genome Biology, 2021 - Springer
Background Transposable elements are increasingly recognized as a source of cis-
regulatory variation. Previous studies have revealed that transposons are often bound by …

Neural crest and the origin of species‐specific pattern

RA Schneider - Genesis, 2018 - Wiley Online Library
For well over half of the 150 years since the discovery of the neural crest, the special ability
of these cells to function as a source of species‐specific pattern has been clearly …