ArticleJournal of experimental botany2019
Specific chromatin changes mark lateral organ founder cells in the Arabidopsis inflorescence meristem.
Article in Journal of experimental botany, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- AntagonizingProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Application of Single-Cell Assay for Transposase-Accessible Chromatin with High Throughput Sequencing in Plant Science: Advances, Technical Challenges, and Prospects.International journal of molecular sciences · 2024Review
- Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis.Plant & cell physiology · 2021Article
- Genome accessibility dynamics in response to phosphate limitation is controlled by the PHR1 family of transcription factors inProceedings of the National Academy of Sciences of the United States of America · 2021Article
- A Genome Doubling Event Reshapes Rice Morphology and Products by Modulating Chromatin Signatures and Gene Expression Profiling.Rice (New York, N.Y.) · 2021Article
- H2AK121ub in Arabidopsis associates with a less accessible chromatin state at transcriptional regulation hotspots.Nature communications · 2021Article
- Accessible chromatin regions and their functional interrelations with gene transcription and epigenetic modifications in sorghum genome.Plant communications · 2021Article
- Histone Demethylases ELF6 and JMJ13 Antagonistically Regulate Self-Fertility in Arabidopsis.Frontiers in plant science · 2021Article
- Understanding epigenomics based on the rice model.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2020Review
- ATAC-seq normalization method can significantly affect differential accessibility analysis and interpretation.Epigenetics & chromatin · 2020Article
- Considerations in the analysis of plant chromatin accessibility data.Current opinion in plant biology · 2020Review
- Functional dissection of the DORNRÖSCHEN-LIKE enhancer 2 during embryonic and phyllotactic patterning.Planta · 2020Article
- Looking At the Past and Heading to the Future: Meeting Summary of the 6Frontiers in plant science · 2019Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Fluorescence-activated cell sorting (FACS) and assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) were combined to analyse the chromatin state of lateral organ founder cells (LOFCs) in the peripheral zone of the Arabidopsis apetala1-1 cauliflower-1 double mutant inflorescence meristem. On a genome-wide level, we observed a striking correlation between transposase hypersensitive sites (THSs) detected by ATAC-seq and DNase I hypersensitive sites (DHSs). The mostly expanded DHSs were often substructured into several individual THSs, which correlated with phylogenetically conserved DNA sequences or enhancer elements. Comparing chromatin accessibility with available RNA-seq data, THS change configuration was reflected by gene activation or repression and chromatin regions acquired or lost transposase accessibility in direct correlation with gene expression levels in LOFCs. This was most pronounced immediately upstream of the transcription start, where genome-wide THSs were abundant in a complementary pattern to established H3K4me3 activation or H3K27me3 repression marks. At this resolution, the combined application of FACS/ATAC-seq is widely applicable to detect chromatin changes during cell-type specification and facilitates the detection of regulatory elements in plant promoters.
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