ArticlePlant physiology2022
Single seeds exhibit transcriptional heterogeneity during secondary dormancy induction.
Article in Plant physiology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 30 citations in OpenAlex.
- Transcriptional activity during seed imbibition is conserved, robust and required for germination.Nature communications · 2026Article
- SnRK2.4 and SnRK2.10 redundantly control developmental leaf senescence by sustaining ABA production and signaling.Plant physiology · 2026Article
- Replication-independent eviction of the histone variant H2B.8 reveals chromatin reprogramming during seed imbibition.Nature communications · 2026Article
- Holistic overview of regulatory networks governing seed dormancy and germination in plants.Science China. Life sciences · 2026Review
- The Arabidopsis deNADding Enzyme DXO1 Modulates the Plant Immunity Response.Plant, cell & environment · 2026Article
- UBA2A regulates seed dormancy and the stability of chromatin-retained DOG1 messenger RNA.Journal of integrative plant biology · 2025Article
- Distinct Molecular Biomechanical Mechanisms Inhibit Endosperm Cell-Wall Weakening and Seed Germination at Cold and Warm Nonoptimal Temperatures.Plant, cell & environment · 2025Article
- Chromatin retained MUSHER lncRNA integrates ABA and DOG1 signalling pathways to enhance Arabidopsis seeds dormancy.Nature communications · 2025Article
- Defective Processing of Cytoplasmic and Chloroplast Ribosomal RNA in the Absence of Arabidopsis DXO1.Plant, cell & environment · 2025Article
- The BRAHMA-associated SWI/SNF chromatin remodeling complex controls Arabidopsis seed quality and physiology.Plant physiology · 2024Article
- Analysis of the quadruple lsu mutant reveals molecular determinants of the role of LSU proteins in sulfur assimilation in Arabidopsis.The Plant journal : for cell and molecular biology · 2024Article
- Establishment of single-cell transcriptional states during seed germination.Nature plants · 2024Article
- A commitment for life: Decades of unraveling the molecular mechanisms behind seed dormancy and germination.The Plant cell · 2024Review
- Bet-hedging and variability in plant development: seed germination and beyond.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2024Review
- Dormancy heterogeneity among Arabidopsis thaliana seeds is linked to individual seed size.Plant communications · 2024Article
- The UBP5 histone H2A deubiquitinase counteracts PRCs-mediated repression to regulate Arabidopsis development.Nature communications · 2024Article
- A Travel through Landscapes of Seed Dormancy.Plants (Basel, Switzerland) · 2023Review
- Promoter-pervasive transcription causes RNA polymerase II pausing to boost DOG1 expression in response to salt.The EMBO journal · 2023Article
- To germinate or not? Transcriptional gradients underlie the seed dormancy continuum.Plant physiology · 2022Article
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Seeds are highly resilient to the external environment, which allows plants to persist in unpredictable and unfavorable conditions. Some plant species have adopted a bet-hedging strategy to germinate a variable fraction of seeds in any given condition, and this could be explained by population-based threshold models. Here, in the model plant Arabidopsis (Arabidopsis thaliana), we induced secondary dormancy (SD) to address the transcriptional heterogeneity among seeds that leads to binary germination/nongermination outcomes. We developed a single-seed RNA-seq strategy that allowed us to observe a reduction in seed transcriptional heterogeneity as seeds enter stress conditions, followed by an increase during recovery. We identified groups of genes whose expression showed a specific pattern through a time course and used these groups to position the individual seeds along the transcriptional gradient of germination competence. In agreement, transcriptomes of dormancy-deficient seeds (mutant of DELAY OF GERMINATION 1) showed a shift toward higher values of the germination competence index. Interestingly, a significant fraction of genes with variable expression encoded translation-related factors. In summary, interrogating hundreds of single-seed transcriptomes during SD-inducing treatment revealed variability among the transcriptomes that could result from the distribution of population-based sensitivity thresholds. Our results also showed that single-seed RNA-seq is the method of choice for analyzing seed bet-hedging-related phenomena.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.