ArticleThe Plant cell2013
Genome-wide binding analysis of the transcription activator ideal plant architecture1 reveals a complex network regulating rice plant architecture.
Article in The Plant cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 178 papers.
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178 citing papers in PubMed, 417 citations in OpenAlex.
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- Mutual potentiation of IPA1 and OsNPR1 enhances rice immunity.The Plant cell · 2026Article
- OsWRKY53-OsGT1 Module Regulates Rice Tiller Development and Is Involved in Fine-Tuning Strigolactone Signaling.Plant biotechnology journal · 2026Article
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- Integrative molecular mechanisms of lodging resistance in rice (Frontiers in plant science · 2026Review
- Systematic mutagenesis reveals dominant-minor paralog configurations in the riceFrontiers in plant science · 2026Article
- Unveiling the dual role ofPlant signaling & behavior · 2025Article
- Florigen and cytokinin signaling antagonistically regulate FLOWERING LOCUS T-LIKE1 to drive a florigen relay that facilitates inflorescence development in rice.Science advances · 2025Article
- The RING-domain E3 ubiquitin ligase OsRGLG6 regulates rice grain number and yield via ubiquitination-mediated degradation of OsOTUB1.aBIOTECH · 2025Article
- Seasons and shape: inflorescences from autumn to summer.Journal of experimental botany · 2025Review
- Large-scale analysis of MYB genes in Cucurbitaceae identifies a novel gene regulating plant height.Horticulture research · 2025Article
- Spatial and single-cell expression analyses reveal complex expression domains in early wheat spike development.Genome biology · 2025Article
118 more citing papers are in PubMed but not listed here.
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Authors and funding
13 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Ideal plant architecture1 (IPA1) is critical in regulating rice (Oryza sativa) plant architecture and substantially enhances grain yield. To elucidate its molecular basis, we first confirmed IPA1 as a functional transcription activator and then identified 1067 and 2185 genes associated with IPA1 binding sites in shoot apices and young panicles, respectively, through chromatin immunoprecipitation sequencing assays. The Squamosa promoter binding protein-box direct binding core motif GTAC was highly enriched in IPA1 binding peaks; interestingly, a previously uncharacterized indirect binding motif TGGGCC/T was found to be significantly enriched through the interaction of IPA1 with proliferating cell nuclear antigen promoter binding factor1 or promoter binding factor2. Genome-wide expression profiling by RNA sequencing revealed IPA1 roles in diverse pathways. Moreover, our results demonstrated that IPA1 could directly bind to the promoter of rice teosinte branched1, a negative regulator of tiller bud outgrowth, to suppress rice tillering, and directly and positively regulate dense and erect panicle1, an important gene regulating panicle architecture, to influence plant height and panicle length. The elucidation of target genes of IPA1 genome-wide will contribute to understanding the molecular mechanisms underlying plant architecture and to facilitating the breeding of elite varieties with ideal plant architecture.
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