Three-dimensional chromatin packing and positioning of plant genomes

ES Doğan, C Liu - Nature plants, 2018 - nature.com
Abstract Information and function of a genome are not only decorated with epigenetic marks
in the linear DNA sequence but also in their non-random spatial organization in the nucleus …

Cycling in a crowd: Coordination of plant cell division, growth, and cell fate

R Sablowski, C Gutierrez - The Plant Cell, 2022 - academic.oup.com
The reiterative organogenesis that drives plant growth relies on the constant production of
new cells, which remain encased by interconnected cell walls. For these reasons, plant …

Is the mutation rate lower in genomic regions of stronger selective constraints?

H Liu, J Zhang - Molecular Biology and Evolution, 2022 - academic.oup.com
A study of the plant Arabidopsis thaliana detected lower mutation rates in genomic regions
where mutations are more likely to be deleterious, challenging the principle that …

Enhancers associated with unstable RNAs are rare in plants

BR Mcdonald, CL Picard, IM Brabb, MI Savenkova… - Nature Plants, 2024 - nature.com
Unstable transcripts have emerged as markers of active enhancers in vertebrates and
shown to be involved in many cellular processes and medical disorders. However, their …

Understanding 3D genome organization and its effect on transcriptional gene regulation under environmental stress in plant: a chromatin perspective

S Kumar, S Kaur, K Seem, S Kumar… - Frontiers in Cell and …, 2021 - frontiersin.org
The genome of a eukaryotic organism is comprised of a supra-molecular complex of
chromatin fibers and intricately folded three-dimensional (3D) structures. Chromosomal …

Crossover patterning in plants

A Lloyd - Plant Reproduction, 2023 - Springer
Key message Chromatin state, and dynamic loading of pro-crossover protein HEI10 at
recombination intermediates shape meiotic chromosome patterning in plants. Abstract …

Somatic mutations inferred from RNA-seq data highlight the contribution of replication timing to mutation rate variation in a model plant

PM Staunton, AJ Peters, C Seoighe - Genetics, 2023 - academic.oup.com
Variation in the rates and characteristics of germline and somatic mutations across the
genome of an organism is informative about DNA damage and repair processes and can …

The 3D genome: from structure to function

TK Mohanta, AK Mishra, A Al-Harrasi - International Journal of Molecular …, 2021 - mdpi.com
The genome is the most functional part of a cell, and genomic contents are organized in a
compact three-dimensional (3D) structure. The genome contains millions of nucleotide …

Telomeres and subtelomeres dynamics in the context of early chromosome interactions during meiosis and their implications in plant breeding

M Aguilar, P Prieto - Frontiers in Plant Science, 2021 - frontiersin.org
Genomic architecture facilitates chromosome recognition, pairing, and recombination.
Telomeres and subtelomeres play an important role at the beginning of meiosis in specific …

Loss of small-RNA-directed DNA methylation in the plant cell cycle promotes germline reprogramming and somaclonal variation

F Borges, MTA Donoghue, C LeBlanc, EE Wear… - Current Biology, 2021 - cell.com
methyl cytosine is widespread in plant genomes in both CG and non-CG contexts. During
replication, hemi-methylation on parental DNA strands guides symmetric CG methylation on …