ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2024
Multiome in the Same Cell Reveals the Impact of Osmotic Stress on Arabidopsis Root Tip Development at Single-Cell Level.
Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 18 citations in OpenAlex.
- Single-Cell Insights into Medicinal Plant Development and Metabolism.Plants (Basel, Switzerland) · 2026Review
- Stable lineages, rewired landscapes: single-cell and spatial multi-omics reveal developmental plasticity under abiotic stress.The New phytologist · 2026Review
- Advances in single-cell and spatial multi-omics for plant development and stress responses.Plant diversity · 2026Review
- Positional grammar of transcription factor binding partitions developmental and stress-response regulation in plants.Nature communications · 2026Article
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- Cell-Type-Specific and Variety-Specific Responses to Salt Stress in Wheat Root Revealed by Single-Cell Transcriptomics.Plant biotechnology journal · 2026Article
- Integrating scRNA-seq and snRNA-seq with spatial transcriptomics to unlock the xylem puzzle.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
- Why "Where" Matters as Much as "How Much": Single-Cell and Spatial Transcriptomics in Plants.International journal of molecular sciences · 2025Review
- Emerging Mechanisms of Plant Responses to Abiotic Stress.Plants (Basel, Switzerland) · 2025Review
- Assessment and applications of joint profiling of single-cell chromatin accessibility and transcriptome.Briefings in bioinformatics · 2025Review
- Transcriptomic response analysis of rubber tree saplings to water-deficit stress at single-cell resolution.Communications biology · 2025Article
- Single-nucleus multi-omics reveals the impact of drought stress on the development of soybean endosperm.Plant communications · 2025Article
- Single-cell omics in plant biology: mechanistic insights and applications for crop improvement.Advanced biotechnology · 2025Review
- Progress in Transcriptomics and Metabolomics in Plant Responses to Abiotic Stresses.Current issues in molecular biology · 2025Review
- Single-cell multiome reveals root hair-specific responses to salt stress.The New phytologist · 2025Article
- Single-Cell Transcriptome Reveals the Cellular Response to PEG-Induced Stress in Wheat Leaves.Journal of agricultural and food chemistry · 2025Article
- Time-course transcriptome analysis reveals gene co-expression networks and transposable element responses to cold stress in cotton.BMC genomics · 2025Article
- Single-Cell Transcriptomics Applied in Plants.Cells · 2024Review
- Multiome in the Same Cell Reveals the Impact of Osmotic Stress on Arabidopsis Root Tip Development at Single-Cell Level.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 2 countries.
Funding
Abstract
Cell-specific transcriptional regulatory networks (TRNs) play vital roles in plant development and response to environmental stresses. However, traditional single-cell mono-omics techniques are unable to directly capture the relationships and dynamics between different layers of molecular information within the same cells. While advanced algorithm facilitates merging scRNA-seq and scATAC-seq datasets, accurate data integration remains a challenge, particularly when investigating cell-type-specific TRNs. By examining gene expression and chromatin accessibility simultaneously in 16,670 Arabidopsis root tip nuclei, the TRNs are reconstructed that govern root tip development under osmotic stress. In contrast to commonly used computational integration at cell-type level, 12,968 peak-to-gene linkage is captured at the bona fide single-cell level and construct TRNs at an unprecedented resolution. Furthermore, the unprecedented datasets allow to more accurately reconstruct the coordinated changes of gene expression and chromatin states during cellular state transition. During root tip development, chromatin accessibility of initial cells precedes gene expression, suggesting that changes in chromatin accessibility may prime cells for subsequent differentiation steps. Pseudo-time trajectory analysis reveal that osmotic stress can shift the functional differentiation of trichoblast. Candidate stress-related gene-linked cis-regulatory elements (gl-cCREs) as well as potential target genes are also identified, and uncovered large cellular heterogeneity under osmotic stress.
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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.