The prevalence, evolution and chromatin signatures of plant regulatory elements

Z Lu, AP Marand, WA Ricci, CL Ethridge, X Zhang… - Nature Plants, 2019 - nature.com
Chromatin accessibility and modification is a hallmark of regulatory DNA, the study of which
led to the discovery of cis-regulatory elements (CREs). Here, we characterize chromatin …

Cis-regulatory sequences in plants: their importance, discovery, and future challenges

RJ Schmitz, E Grotewold, M Stam - The plant cell, 2022 - academic.oup.com
The identification and characterization of cis-regulatory DNA sequences and how they
function to coordinate responses to developmental and environmental cues is of paramount …

Epigenetic control of gene regulation in plants

M Lauria, V Rossi - Biochimica et Biophysica Acta (BBA)-Gene Regulatory …, 2011 - Elsevier
In eukaryotes, including plants, the genome is compacted into chromatin, which forms a
physical barrier for gene transcription. Therefore, mechanisms that alter chromatin structure …

Profiling of accessible chromatin regions across multiple plant species and cell types reveals common gene regulatory principles and new control modules

KA Maher, M Bajic, K Kajala, M Reynoso… - The Plant …, 2018 - academic.oup.com
The transcriptional regulatory structure of plant genomes remains poorly defined relative to
animals. It is unclear how many cis-regulatory elements exist, where these elements lie …

Integrative epigenomic mapping defines four main chromatin states in Arabidopsis

F Roudier, I Ahmed, C Bérard, A Sarazin… - The EMBO …, 2011 - embopress.org
Post‐translational modification of histones and DNA methylation are important components
of chromatin‐level control of genome activity in eukaryotes. However, principles governing …

Widespread long-range cis-regulatory elements in the maize genome

WA Ricci, Z Lu, L Ji, AP Marand, CL Ethridge… - Nature plants, 2019 - nature.com
Genetic mapping studies on crops suggest that agronomic traits can be controlled by gene–
distal intergenic loci. Despite the biological importance and the potential agronomic utility of …

Chromatin indexing in Arabidopsis: an epigenomic tale of tails and more

F Roudier, FK Teixeira, V Colot - Trends in Genetics, 2009 - cell.com
Packaging DNA into chromatin is pivotal for the regulation of genome activity in eukaryotes.
This chromatin-level control relies on a range of histone modifications and variants …

Plant transcription factors—being in the right place with the right company

L Strader, D Weijers, D Wagner - Current opinion in plant biology, 2022 - Elsevier
Transcriptional regulation underlies many of the growth and developmental processes that
shape plants as well as their adaptation to their environment. Key to transcriptional control …

Epigenetics: beyond chromatin modifications and complex genetic regulation

SR Eichten, RJ Schmitz, NM Springer - Plant physiology, 2014 - academic.oup.com
Chromatin modifications and epigenetics may play important roles in many plant processes,
including developmental regulation, responses to environmental stimuli, and local …

Creating order from chaos: epigenome dynamics in plants with complex genomes

NM Springer, D Lisch, Q Li - The Plant Cell, 2016 - academic.oup.com
Flowering plants have strikingly distinct genomes, although they contain a similar suite of
expressed genes. The diversity of genome structures and organization is largely due to …