ArticleNature plants2024
Establishment of single-cell transcriptional states during seed germination.
Article in Nature plants, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Early detection and genetic insights into salt tolerance in rice by linking physiology and spectral reflectance during seed germination.Plant phenomics (Washington, D.C.) · 2026Article
- Light-Controlled Seed Germination: Molecular Integration With Environmental Signals.Plant, cell & environment · 2026Review
- Deciphering Cell-Type-Specific Transcriptional Regulation in Tomato Leaves Through Ensemble Machine Learning and Single-Cell Transcriptomics.Plants (Basel, Switzerland) · 2026Article
- A four-dimensional spatial transcriptome atlas of barley caryopsis development and germination.The Plant cell · 2026Article
- Mass Spectrometry Imaging Combined With Single-Cell Transcriptional Profiling Reveals the Multidimensional Spatial Distributions and Biosynthetic Pathways of Medicinal Components in Andrographis paniculata.Plant biotechnology journal · 2026Article
- Integrated Single-Cell and Spatial Transcriptomics Reveal Cell-Type-Specific Immune Regulatory Networks in Maize Responding to Southern Corn Rust.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Holistic overview of regulatory networks governing seed dormancy and germination in plants.Science China. Life sciences · 2026Review
- Advances in seed omics.Journal of experimental botany · 2026Review
- Next-Generation Genotyping: Innovations Driving Plant Genomic Improvement.Life (Basel, Switzerland) · 2026Review
- Dynamic and cell-type specific transcriptional reprogramming underlies the floral transition in the maize shoot apical meristem.Genome biology · 2026Article
- Advances in single-cell and spatial omics for studying symbiotic nitrogen fixation: comparative cellular and evolutionary perspectives.Genome biology · 2026Review
- Light interacts with mechanical stress to regulate the seed-to-seedling transition.Stress biology · 2025Review
- DNA Double Strand Break Repair Is Important for the Longevity of Primed Seeds.Plant, cell & environment · 2025Article
- Single-nucleus RNA-sequencing reveals the cellular programs driving nematode-induced giant cell formation in tomato.Horticulture research · 2025Article
- Single-nucleus transcriptomics reveal the morphogenesis and artemisinin biosynthesis in Artemisia annua glandular trichomes.Nature communications · 2025Article
- Long Noncoding RNAs as Emerging Regulators of Seed Development, Germination, and Senescence.International journal of molecular sciences · 2025Review
- Multi-omics profiling reveals single-seed mutants of Ephedra saxatilis as dominant variants in high-altitude Xizang.BMC plant biology · 2025Article
- Single-cell omics in plant biology: mechanistic insights and applications for crop improvement.Advanced biotechnology · 2025Review
- Control of seed-to-seedling transition by an upstream open reading frame inProceedings of the National Academy of Sciences of the United States of America · 2025Article
- A space for time. Exploring temporal regulation of plant development across spatial scales.The Plant journal : for cell and molecular biology · 2025Review
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17 authors.
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Abstract
Germination involves highly dynamic transcriptional programs as the cells of seeds reactivate and express the functions necessary for establishment in the environment. Individual cell types have distinct roles within the embryo, so must therefore have cell type-specific gene expression and gene regulatory networks. We can better understand how the functions of different cell types are established and contribute to the embryo by determining how cell type-specific transcription begins and changes through germination. Here we describe a temporal analysis of the germinating Arabidopsis thaliana embryo at single-cell resolution. We define the highly dynamic cell type-specific patterns of gene expression and how these relate to changing cellular function as germination progresses. Underlying these are unique gene regulatory networks and transcription factor activity. We unexpectedly discover that most embryo cells transition through the same initial transcriptional state early in germination, even though cell identity has already been established during embryogenesis. Cells later transition to cell type-specific gene expression patterns. Furthermore, our analyses support previous findings that the earliest events leading to the induction of seed germination take place in the vasculature. Overall, our study constitutes a general framework with which to characterize Arabidopsis cell transcriptional states through seed germination, allowing investigation of different genotypes and other plant species whose seed strategies may differ.
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