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 …

DNA methylation remodeling in F1 hybrids

I Kakoulidou, F Johannes - The Plant Journal, 2024 - Wiley Online Library
SUMMARY F1 hybrids derived from a cross between two inbred parental lines often display
widespread changes in DNA methylation patterns relative to their parents. To which extent …

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 …

H3K9 methylation regulates heterochromatin silencing through incoherent feedforward loops

K Yabe, A Kamio, S Oya, T Kakutani, M Hirayama… - Science …, 2024 - science.org
Histone H3 lysine-9 methylation (H3K9me) is a hallmark of the condensed and
transcriptionally silent heterochromatin. It remains unclear how H3K9me controls …

Crosstalk among pathways to generate DNA methylome

TK To, T Kakutani - Current Opinion in Plant Biology, 2022 - Elsevier
Cytosine is methylated in both CpG and non-CpG contexts (mCG and mCH, respectively) in
plant genomes. Although mCG and mCH are almost independent in regard to their …

Conditional GWAS of non-CG transposon methylation in Arabidopsis thaliana reveals major polymorphisms in five genes

E Sasaki, J Gunis, I Reichardt-Gomez… - PLoS …, 2022 - journals.plos.org
Genome-wide association studies (GWAS) have revealed that the striking natural variation
for DNA CHH-methylation (mCHH; H is A, T, or C) of transposons has oligogenic …

Epigenetic changes occurring in plant inbreeding

M Achrem, E Stępień, A Kalinka - International Journal of Molecular …, 2023 - mdpi.com
Inbreeding is the crossing of closely related individuals in nature or a plantation or self-
pollinating plants, which produces plants with high homozygosity. This process can reduce …

H3K9 demethylases IBM1 and JMJ27 are required for male meiosis in Arabidopsis thaliana

J Cheng, L Xu, V Bergér, A Bruckmann… - New …, 2022 - Wiley Online Library
Dimethylation of histone H3 lysine 9 (H3K9me2), a crucial modification for heterochromatin
formation and transcriptional silencing, is essential for proper meiotic prophase progression …

The evolutionary consequences of interactions between the epigenome, the genome and the environment

P Baduel, I Sammarco, R Barrett… - Evolutionary …, 2024 - Wiley Online Library
The epigenome is the suite of interacting chemical marks and molecules that helps to shape
patterns of development, phenotypic plasticity and gene regulation, in part due to its …