{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Li Y"],"funding":["Development funds of the National Key Laboratory of Crop Genetic Improvement","Hubei Provincial Postdoctoral Innovative Talent Cultivation Program","Fundamental Research Funds for the Central Universities","Hubei Provincial Natural Science Foundation for Young Scholars Project","Hubei Hongshan Laboratory Start Fund","National Natural Science Foundation of China","China Postdoctoral Science Foundation","National Key Research and Development Program of Hubei Province","Biological Breeding-National Science and Technology Major Project","Postdoctoral Fellowship Program of CPSF","Department of Human Resources and Social Security of Hubei Province"],"pagination":["58"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12930761"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["27(1)"],"pubmed_abstract":["<h4>Background</h4>Trimethylation of histone H3 lysine 27 (H3K27me3) confers a repressive chromatin state and is dynamically deposited and removed to regulate gene expression throughout plant growth and development. Nevertheless, the three-dimensional epigenome architecture linked to H3K27me3 and its regulatory role in controlling rice development remain unclear.<h4>Results</h4>Here, we employ long-read ChIA-PET to map the genome topology associated with H3K27me3 in rice, identifying hundreds of repressive chromatin spatial clusters within chromosomes. The T-DNA insertional mutagenesis of EMBRYONIC FLOWER 2b (OsEMF2b) leads to disruption of H3K27me3-associated chromatin interaction networks. Notably, we discover that the three key flowering time loci, Early heading date 1 (Ehd1) and Headin"],"journal":["Genome biology"],"pubmed_title":["3D epigenome architecture orchestrates cis and trans regulation of flowering time in rice."],"pmcid":["PMC12930761"],"funding_grant_id":["2662024SKPY002, 2662023SKQD002","2025AFB377","2023ZD04076","2022BBA54","2023HSQD002","590320103","2022T150245, 2022M711264","32470669, 32200424","WHGZ2321","2024HBBHCXB031","GZC20240563, GZC20240554"],"pubmed_authors":["Li G","Li H","Yan J","Ouyang W","Ouyang X","Xing Y","Chen G","Wu C","Zheng R","Xie L","Shen C","Guan P","Foda M","Qiu L","Wu H","Li W","Guo M","Li X","Li Y","Zhang Z","Cao Z","Wang S","Zhang Y","Huang X"],"additional_accession":[]},"is_claimable":false,"name":"3D epigenome architecture orchestrates cis and trans regulation of flowering time in rice.","description":"<h4>Background</h4>Trimethylation of histone H3 lysine 27 (H3K27me3) confers a repressive chromatin state and is dynamically deposited and removed to regulate gene expression throughout plant growth and development. Nevertheless, the three-dimensional epigenome architecture linked to H3K27me3 and its regulatory role in controlling rice development remain unclear.<h4>Results</h4>Here, we employ long-read ChIA-PET to map the genome topology associated with H3K27me3 in rice, identifying hundreds of repressive chromatin spatial clusters within chromosomes. The T-DNA insertional mutagenesis of EMBRYONIC FLOWER 2b (OsEMF2b) leads to disruption of H3K27me3-associated chromatin interaction networks. Notably, we discover that the three key flowering time loci, Early heading date 1 (Ehd1) and Headin","dates":{"release":"2026-01-01T00:00:00Z","publication":"2026 Jan","modification":"2026-07-09T12:21:39.814Z","creation":"2026-07-09T11:17:34.682Z"},"accession":"S-EPMC12930761","cross_references":{"pubmed":["41606643"],"doi":["10.1186/s13059-026-03940-3"]}}