ArticleBMC biology2021
Reorganization of the 3D chromatin architecture of rice genomes during heat stress.
Article in BMC biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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Who cites it
48 citing papers in PubMed, 93 citations in OpenAlex.
- Integrated Comparative Genomics and Population Genomics Reveal the Genomic and Epigenomic Basis of Barley (Plants (Basel, Switzerland) · 2026Article
- Premeiotic chromatin states orchestrate gene expression during male gametogenesis in rice.Genome biology · 2026Article
- Chromatin Topology Reconfiguration Orchestrates Thermotolerant Male Fertility via GhAL5 in Cotton.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- The ApWRKY26/ApERF4-ApMYB2 module regulates anthocyanin accumulation for the seasonal leaf color transition inHorticulture research · 2026Article
- Emerging Mechanisms of Plant Responses to Abiotic Stress.Plants (Basel, Switzerland) · 2025Review
- Combination of 3D chromatin architecture and omics analysis provides insight into anthocyanin regulation inHorticulture research · 2025Article
- A heat stress-responsive epigenome defines the dynamic 3D chromatin structure in Chinese cabbage.Plant physiology · 2025Article
- Plants repress ROS1 expression to attenuate heat-induced transposon burst.Nature plants · 2025Article
- Climate change and plant genomic plasticity.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Polymer-derived distance penalties improve chromatin interaction predictions from single-cell data across crop genomes.bioRxiv : the preprint server for biology · 2025Article
- ISDH-seq: a robust methodology for profiling and characterization of open chromatin.Plant biotechnology journal · 2025Article
- An integrative 3D-genome database for plants.Plant communications · 2025Article
- Epigenetics in the modern era of crop improvements.Science China. Life sciences · 2025Review
- Genome Mountaineering: Expanding Horizons of the 3D Genome for the Intrepid Evolutionary Adventurer.Genome biology and evolution · 2025Review
- Centromere-size reduction and chromatin state dynamics following intergenomic hybridization in cotton.PLoS genetics · 2025Article
- Rapid formation of stable autotetraploid rice from genome-doubled F1 hybrids of japonica-indica subspecies.Nature plants · 2025Article
- Multiomic analyses reveal transcription factors involved in the fatty acid biosynthesis pathway under cold stress in upland cotton (Frontiers in plant science · 2025Article
- Decrypting molecular mechanism of heat stress tolerance in rice to tackle climate change challenges through recent approaches.Frontiers in plant science · 2025Review
- Heat stress causes chromatin accessibility and related gene expression changes in crown tissues of barley (Hordeum vulgare).Plant molecular biology · 2024Article
- Drought-responsive dynamics of H3K9ac-marked 3D chromatin interactions are integrated by OsbZIP23-associated super-enhancer-like promoter regions in rice.Genome biology · 2024Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 3 countries.
Funding
Abstract
backgroundThe three-dimensional spatial organization of the genome plays important roles in chromatin accessibility and gene expression in multiple biological processes and has been reported to be altered in response to environmental stress. However, the functional changes in spatial genome organization during environmental changes in crop plants are poorly understood.
resultsHere we perform Hi-C, ATAC-seq, and RNA-seq in two agronomically important rice cultivars, Nipponbare (Nip; Japonica) and 93-11 (Indica), to report a comprehensive profile of nuclear dynamics during heat stress (HS). We show that heat stress affects different levels of chromosome organization, including A/B compartment transition, increase in the size of topologically associated domains, and loss of short-range interactions. The chromatin architectural changes were associated with chromatin accessibility and gene expression changes. Comparative analysis revealed that 93-11 exhibited more dynamic gene expression and chromatin accessibility changes, including HS-related genes, consistent with observed higher HS tolerance in this cultivar.
conclusionsOur data uncovered higher-order chromatin architecture as a new layer in understanding transcriptional regulation in response to heat stress in rice.
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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.