Photoperiod-responsive changes in chromatin accessibility in phloem companion and epidermis cells of Arabidopsis leaves.
Hao TianYuru LiCe WangXingwen XuYajie ZhangQudsia ZebJohan ZicolaYong-Fu FuFranziska TurckLegong LiZefu LuLiangyu LiuPublished in: The Plant cell (2021)
Photoperiod plays a key role in controlling the phase transition from vegetative to reproductive growth in flowering plants. Leaves are the major organs perceiving day-length signals, but how specific leaf cell types respond to photoperiod remains unknown. We integrated photoperiod-responsive chromatin accessibility and transcriptome data in leaf epidermis and vascular companion cells of Arabidopsis thaliana by combining isolation of nuclei tagged in specific cell/tissue types with assay for transposase-accessible chromatin using sequencing and RNA-sequencing. Despite a large overlap, vasculature and epidermis cells responded differently. Long-day predominantly induced accessible chromatin regions (ACRs); in the vasculature, more ACRs were induced and these were located at more distal gene regions, compared with the epidermis. Vascular ACRs induced by long days were highly enriched in binding sites for flowering-related transcription factors. Among the highly ranked genes (based on chromatin and expression signatures in the vasculature), we identified TREHALOSE-PHOSPHATASE/SYNTHASE 9 (TPS9) as a flowering activator, as shown by the late flowering phenotypes of T-DNA insertion mutants and transgenic lines with phloem-specific knockdown of TPS9. Our cell-type-specific analysis sheds light on how the long-day photoperiod stimulus impacts chromatin accessibility in a tissue-specific manner to regulate plant development.
Keyphrases
- transcription factor
- genome wide
- arabidopsis thaliana
- gene expression
- single cell
- dna damage
- induced apoptosis
- cell cycle arrest
- dna methylation
- genome wide identification
- rna seq
- high glucose
- stem cells
- drug induced
- diabetic rats
- poor prognosis
- oxidative stress
- dna binding
- mesenchymal stem cells
- immune response
- drug delivery
- african american
- toll like receptor
- inflammatory response
- data analysis
- nuclear factor
- single molecule