ArticleNature plants2023
Time series single-cell transcriptional atlases reveal cell fate differentiation driven by light in Arabidopsis seedlings.
Article in Nature plants, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 40 citations in OpenAlex.
- Photoreceptors as central hubs of developmental plasticity and environmental adaptation.Molecules and cells · 2026Review
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- Single-Cell CRISPR: An Efficient Strategy for Decoding Plant Cis-Regulatory Complexity.Plant biotechnology journal · 2026Review
- Mechanisms underlying green flower formation.Horticulture research · 2026Article
- Hooked hairs: A cellular key adaptation aiding seedling survival in nutrient-limited and drought conditions.Science advances · 2026Article
- Plant movements: navigating the light environment.Plant physiology · 2026Review
- Single-nucleus transcriptome profiling unveils cell-type-specific ethylene and TOR signaling in tomato.Horticulture research · 2026Article
- Genome-Wide Identification and Functional Studies of the APX Gene Family in Oat (Life (Basel, Switzerland) · 2026Article
- Article
- Effects of seedling-stage LED supplementary lighting on the eating quality and textural properties of oriental melon (Frontiers in plant science · 2026Article
- Integrated single cell transcriptomics analysis for unraveling heterogeneity and plasticity of root cells for sustainable and regenerative agriculture.Frontiers in plant science · 2026Review
- Genome-scale transcriptome augmentation during Arabidopsis thaliana photomorphogenesis.Nature communications · 2025Article
- Transcriptional dynamics and chromatin accessibility in the regulation of shade-responsive genes in Arabidopsis.Genome biology · 2025Article
- Single-molecule views of chromatin accessibility and structure during photomorphogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Pangenomics and single-cell transcriptomics uncover the genetic basis of continuous bearing trait in grapevine.Horticulture research · 2025Article
- snRNA-Seq Unveils Cell-Type-Specific Immune Dynamics in Arabidopsis During Pinewood Nematode Infection.Molecular plant pathology · 2025Article
- Single-cell omics in plant biology: mechanistic insights and applications for crop improvement.Advanced biotechnology · 2025Review
- Guard cells on the adaxial and abaxial leaf surfaces use different compositions of potassium ion channels to drive light-induced stomatal opening.Nature plants · 2025Article
- Differential cellular communication inference framework for large-scale single-cell RNA-sequencing data.NAR genomics and bioinformatics · 2025Article
- 48-Hour and 24-Hour Time-lapse Single-nucleus Transcriptomics Reveal Cell-type specific Circadian Rhythms in Arabidopsis.Nature communications · 2025Article
Corrections and comments
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Authors and funding
16 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Light serves as the energy source for plants as well as a signal for growth and development during their whole life cycle. Seedling de-etiolation is the most dramatic manifestation of light-regulated plant development processes, as massive reprogramming of the plant transcriptome occurs at this time. Although several studies have reported about organ-specific development and expression induced by light, a systematic analysis of cell-type-specific differentiation and the associated transcriptional regulation is still lacking. Here we obtained single-cell transcriptional atlases for etiolated, de-etiolating and light-grown Arabidopsis thaliana seedlings. Informative cells from shoot and root tissues were grouped into 48 different cell clusters and finely annotated using multiple markers. With the determination of comprehensive developmental trajectories, we demonstrate light modulation of cell fate determination during guard cell specialization and vasculature development. Comparison of expression atlases between wild type and the pifq mutant indicates that phytochrome-interacting factors (PIFs) are involved in distinct developmental processes in endodermal and stomatal lineage cells via controlling cell-type-specific expression of target genes. These results provide information concerning the light signalling networks at the cell-type resolution, improving our understanding of how light regulates plant development at the cell-type and genome-wide levels. The obtained information could serve as a valuable resource for comprehensively investigating the molecular mechanism of cell development and differentiation in response to light.
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