Stochasticity in gene body methylation

C Goeldel, F Johannes - Current Opinion in Plant Biology, 2023 - Elsevier
Gene body methylation (gbM) is a widely conserved epigenetic feature of plant genomes.
Efforts to delineate the mechanisms by which gbM contributes to transcriptional regulation …

Epimutations define a fast-ticking molecular clock in plants

N Yao, RJ Schmitz, F Johannes - Trends in Genetics, 2021 - cell.com
Stochastic gains and losses of DNA methylation at CG dinucleotides are a frequent
occurrence in plants. These spontaneous 'epimutations' occur at a rate that is 100 000 times …

An evolutionary epigenetic clock in plants

N Yao, Z Zhang, L Yu, R Hazarika, C Yu, H Jang… - Science, 2023 - science.org
Molecular clocks are the basis for dating the divergence between lineages over
macroevolutionary timescales (~ 105 to 108 years). However, classical DNA-based clocks …

Molecular properties of epimutation hotspots

RR Hazarika, M Serra, Z Zhang, Y Zhang, RJ Schmitz… - Nature plants, 2022 - nature.com
Mistakes in the maintenance of CG methylation are a source of heritable epimutations in
plants. Multigenerational surveys indicate that the rate of these stochastic events varies …

Evolutionary and functional genomics of DNA methylation in maize domestication and improvement

G Xu, J Lyu, Q Li, H Liu, D Wang, M Zhang… - Nature …, 2020 - nature.com
DNA methylation is a ubiquitous chromatin feature, present in 25% of cytosines in the maize
genome, but variation and evolution of the methylation landscape during maize …

Millennia-long epigenetic fluctuations generate intragenic DNA methylation variance in Arabidopsis populations

A Briffa, E Hollwey, Z Shahzad, JD Moore, DB Lyons… - Cell Systems, 2023 - cell.com
Methylation of CG dinucleotides (mCGs), which regulates eukaryotic genome functions, is
epigenetically propagated by Dnmt1/MET1 methyltransferases. How mCG is established …

Heterochromatin is a quantitative trait associated with spontaneous epiallele formation

Y Zhang, H Jang, R Xiao, I Kakoulidou… - Nature …, 2021 - nature.com
Epialleles are meiotically heritable variations in expression states that are independent from
changes in DNA sequence. Although they are common in plant genomes, their molecular …

The unusual predominance of maintenance DNA methylation in Spirodela polyrhiza

A Harkess, AJ Bewick, Z Lu… - G3: Genes …, 2024 - academic.oup.com
Duckweeds are among the fastest reproducing plants, able to clonally divide at exponential
rates. However, the genetic and epigenetic impact of clonality on plant genomes is poorly …

[HTML][HTML] Concepts, mechanisms and implications of long-term epigenetic inheritance

E Hollwey, A Briffa, M Howard, D Zilberman - Current Opinion in Genetics & …, 2023 - Elsevier
Many modes and mechanisms of epigenetic inheritance have been elucidated in
eukaryotes. Most of them are relatively short-term, generally not exceeding one or a few …

Local diversity of drought resistance and resilience in Populus tomentosa correlates with the variation of DNA methylation

J Zhou, L Xiao, R Huang, F Song, L Li… - Plant, Cell & …, 2023 - Wiley Online Library
Little information is known about DNA methylation variation in shaping environment‐specific
drought resistance and resilience for tree adaptation. In this study, we leveraged RNA …