Widespread long-range cis-regulatory elements in the maize genome
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 …
distal intergenic loci. Despite the biological importance and the potential agronomic utility of …
The prevalence, evolution and chromatin signatures of plant regulatory elements
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 …
led to the discovery of cis-regulatory elements (CREs). Here, we characterize chromatin …
Cold stress induces enhanced chromatin accessibility and bivalent histone modifications H3K4me3 and H3K27me3 of active genes in potato
Background Cold stress can greatly affect plant growth and development. Plants have
developed special systems to respond to and tolerate cold stress. While plant scientists have …
developed special systems to respond to and tolerate cold stress. While plant scientists have …
Dynamic control of enhancer activity drives stage-specific gene expression during flower morphogenesis
Enhancers are critical for developmental stage-specific gene expression, but their dynamic
regulation in plants remains poorly understood. Here we compare genome-wide localization …
regulation in plants remains poorly understood. Here we compare genome-wide localization …
Modulating chromatin accessibility by transactivation and targeting proximal dsgRNAs enhances Cas9 editing efficiency in vivo
The CRISPR/Cas9 system is unable to edit all targetable genomic sites with full efficiency in
vivo. We show that Cas9-mediated editing is more efficient in open chromatin regions than …
vivo. We show that Cas9-mediated editing is more efficient in open chromatin regions than …
H3K4me2 functions as a repressive epigenetic mark in plants
Y Liu, K Liu, L Yin, Y Yu, J Qi, WH Shen, J Zhu… - Epigenetics & …, 2019 - Springer
Abstract Background In animals, H3K4me2 and H3K4me3 are enriched at the transcription
start site (TSS) and function as epigenetic marks that regulate gene transcription, but their …
start site (TSS) and function as epigenetic marks that regulate gene transcription, but their …
Global quantitative mapping of enhancers in rice by STARR-seq
J Sun, N He, L Niu, Y Huang, W Shen… - Genomics …, 2019 - academic.oup.com
Enhancers activate transcription in a distance-, orientation-, and position-independent
manner, which makes them difficult to be identified. Self-transcribing active regulatory region …
manner, which makes them difficult to be identified. Self-transcribing active regulatory region …
Characterization of functional relationships of R-loops with gene transcription and epigenetic modifications in rice
Y Fang, L Chen, K Lin, Y Feng, P Zhang… - Genome …, 2019 - genome.cshlp.org
We conducted genome-wide identification of R-loops followed by integrative analyses of R-
loops with relation to gene expression and epigenetic signatures in the rice genome. We …
loops with relation to gene expression and epigenetic signatures in the rice genome. We …
Historical meiotic crossover hotspots fueled patterns of evolutionary divergence in rice
Recombination plays an integral role in the creation of novel genetic variation in sexually
reproducing species. Despite this important role, the determinants and evolution of …
reproducing species. Despite this important role, the determinants and evolution of …
Local changes in chromatin accessibility and transcriptional networks underlying the nitrate response in Arabidopsis roots
Transcriptional regulation, determined by the chromatin structure and regulatory elements
interacting at promoter regions, is a key step in plant responses to environmental cues …
interacting at promoter regions, is a key step in plant responses to environmental cues …