ArticleDevelopmental cell2016
High-Resolution Expression Map of the Arabidopsis Root Reveals Alternative Splicing and lincRNA Regulation.
Article in Developmental cell, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 152 papers.
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152 citing papers in PubMed.
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- Longitudinal zone- and cell type-specific pattern-triggered immune responses in Arabidopsis roots.Developmental cell · 2026Article
- Vitamin K in photosynthetic organisms.Planta · 2026Review
- HHO5 orchestrates dose-dependent feedback regulation of organic versus inorganic nitrogen signaling in Arabidopsis.The Plant cell · 2026Article
- Phosphate starvation induces root cell-type-specific transcriptional responses and alternative splicing.The New phytologist · 2026Article
- Evolutionary diversity of cell-type-specific expression and stress response in Brassicaceae roots.Nature communications · 2026Article
- Evolutionary diversity of cell-type-specific expression and stress response in Brassicaceae roots.bioRxiv : the preprint server for biology · 2026Article
- Accurate strand-specific long-read transcript isoform discovery and quantification at bulk, single-cell, and single-nucleus resolution.bioRxiv : the preprint server for biology · 2026Article
- Single-cell transcriptomic analysis of plant quiescent center by third-generation sequencing reveals developmental trajectories.Genome biology · 2026Article
- Integrated single cell transcriptomics analysis for unraveling heterogeneity and plasticity of root cells for sustainable and regenerative agriculture.Frontiers in plant science · 2026Review
- A balance of metabolism and diffusion articulates a gibberellin hormone gradient in theProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Iron deficiency changes regulatory mechanisms governing sieve element cell differentiation.Nature communications · 2025Article
- Single-cell transcriptional profiling in Arabidopsis root exposed to boron toxicity at seedling stages.Plant molecular biology · 2025Article
- The peptide hormone RGF1 modulates PLETHORA2 stability via reactive oxygen species-dependent regulation of a cysteine residue.Plant physiology · 2025Article
- From peptides to patterning: Redox control of the master regulator PLT2 in Arabidopsis roots.Plant physiology · 2025Article
- Validation of Fiber-Dominant Expressing Gene Promoters inPlants (Basel, Switzerland) · 2025Article
- Comprehensive mapping of Arabidopsis alternative splicing landscape reveals key insights into plant development and immunity.The plant genome · 2025Article
- Identification of a Specific Role of Dihydrozeatin in the Regulation of the Cell Differentiation Activity inPlants (Basel, Switzerland) · 2025Article
- Exploring Alternative Splicing in Response to Salinity: A Tissue-Level Comparative Analysis UsingPlants (Basel, Switzerland) · 2025Article
92 more citing papers are in PubMed but not listed here.
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5 authors.
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Abstract
The extent to which alternative splicing and long intergenic noncoding RNAs (lincRNAs) contribute to the specialized functions of cells within an organ is poorly understood. We generated a comprehensive dataset of gene expression from individual cell types of the Arabidopsis root. Comparisons across cell types revealed that alternative splicing tends to remove parts of coding regions from a longer, major isoform, providing evidence for a progressive mechanism of splicing. Cell-type-specific intron retention suggested a possible origin for this common form of alternative splicing. Coordinated alternative splicing across developmental stages pointed to a role in regulating differentiation. Consistent with this hypothesis, distinct isoforms of a transcription factor were shown to control developmental transitions. lincRNAs were generally lowly expressed at the level of individual cell types, but co-expression clusters provided clues as to their function. Our results highlight insights gained from analysis of expression at the level of individual cell types.
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