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Article
Open AccessHybrid allele-specific ChIP-seq analysis identifies variation in brassinosteroid-responsive transcription factor binding linked to traits in maize
Genetic variation in regulatory sequences that alter transcription factor (TF) binding is a major cause of phenotypic diversity. Brassinosteroid is a growth hormone that has major effects on plant phenotypes. ...
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Article
Open AccessMap** responsive genomic elements to heat stress in a maize diversity panel
Many plant species exhibit genetic variation for co** with environmental stress. However, there are still limited approaches to effectively uncover the genomic region that regulates distinct responsive patte...
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Article
Open AccessFunctional dissection of the DORNRÖSCHEN-LIKE enhancer 2 during embryonic and phyllotactic patterning
The Arabidopsis DORNRÖSCHEN-LIKE enhancer 2 comprises a high-occupancy target region in the IM periphery that integrates signals for the spiral phyllotactic pattern and cruciferous arrangement of sepals.
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Article
Open AccessDynamic 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 of H3K27ac, chromatin accessi...
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Article
Dynamic and spatial restriction of Polycomb activity by plant histone demethylases
Targeted changes in chromatin state at thousands of genes are central to eukaryotic development. RELATIVE OF EARLY FLOWERING 6 (REF6) is a Jumonji-type histone demethylase that counteracts Polycomb repressive ...
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Protocol
Profiling Histone Modifications in Synchronized Floral Tissues for Quantitative Resolution of Chromatin and Transcriptome Dynamics
Covalent histone modifications and their effects on chromatin state and accessibility play a key role in the regulation of gene expression in eukaryotes. To gain insights into their functions during plant grow...
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Protocol
Meta-analysis of Genome-Wide Chromatin Data
Genome-wide analyses of chromatin factor-binding sites or histone modification localization generate lists of up to several thousand potential target genes. For many model organisms, large annotation databases...
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Article
Gene activation and cell fate control in plants: a chromatin perspective
In plants, environment-adaptable organogenesis extends throughout the lifespan, and iterative development requires repetitive rounds of activation and repression of several sets of genes. Eukaryotic genome com...
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Article
Open AccessNatural variation of H3K27me3 distribution between two Arabidopsis accessions and its association with flanking transposable elements
Histone H3 lysine 27 tri-methylation and lysine 9 di-methylation are independent repressive chromatin modifications in Arabidopsis thaliana. H3K27me3 is established and maintained by Polycomb repressive complexes...
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Protocol
Metaanalysis of ChIP-chip Data
Genome-wide analysis of histone modifications via ChIP-chip (chromatin immunoprecipitation followed by whole genome tiling array hybridization) may generate lists of up to several thousand potential target gen...
