Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The GSK3/SHAGGY-Like OsGSK3 Phosphorylates and Inhibits Phase Separation of OsFCA at Ser-43 and Ser-45 to Regulate Brassinosteroid Signaling and Rice Architecture

ABSTRACT: Brassinosteroid (BR) signaling plays a critical role in rice (Oryza sativa) grain development. GLYCOGEN SYNTHASE KINASE 3 (OsGSK3), a negative regulator of BR signaling, suppresses the transcriptional activity of OsBZR1 through phosphorylation. In this study, we employed a phosphoproteomic approach to constructed an OsGSK3-mediated regulatory network. Within this network, we identified OsFCA as a positive regulator of BR signaling and grain length, with m-Osfca mutants exhibiting significantly lower sensitivity to brassinolide treatment. Importantly, OsGSK3 interacts with and phosphorylates OsFCA on serine residues S43 and S45, and then forms condensates via liquid-liquid phase separation. Phosphorylated OsFCA promotes the translocation of the OsGSK3-OsFCA complex into the cytoplasm. Within the cytoplasm, OsGSK3 and OsFCA no longer exist in a condensate state. This mechanism provides precise regulation of grain length in rice. Notably, Osfca mutants are late-flowering, with OsFCA promoting heading under long-day conditions by repressing the expression of Ghd7 while activating that of Ehd1, Hd3a, and RFT1, which is potentially modulated by OsGSK3. This study clarifies the BR signaling transduction network by identifying OsFCA as a positive BR signaling component that regulates grain development and heading date, providing theoretical foundations for molecular breeding design in rice.

ORGANISM(S): Oryza sativa

PROVIDER: GSE332753 | GEO | 2026/06/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

A common set of genes responding to florigenic and photoperiodic induction at the shoot apical meristem of rice

Project description:Flowering of rice is triggered by transcriptional reprogramming at the shoot apical meristem (SAM) mediated by florigenic proteins produced in leaves in response to changes in the photoperiod. Florigens are more rapidly expressed under short day (SD) and include the HEADING DATE 3a (Hd3a) and RICE FLOWERING LOCUS T1 (RFT1) Phosphatidyl Ethanolamine Binding Proteins (PEBP). Hd3a and RFT1 are largely redundant at converting the SAM into an inflorescence, but whether they activate the same target genes and convey all photoperiodic information that modifies gene expression at the SAM is currently unclear. We uncoupled the contribution of Hd3a, RFT1 and SD to transcriptome reprogramming at the SAM, by RNA-sequencing of dex-inducible over-expressors of single florigens and wild type plants exposed to photoperiodic induction. Fifteen highly differentially expressed genes common to Hd3a, RFT1 and SD were retrieved, ten of which still uncharacterized. Detailed functional studies on some candidates revealed a role for LOC_Os04g13150 in determining tiller angle and bract development and the gene was renamed BROADER TILLER ANGLE 1 (BRT1). We identified a core set of genes common to florigenic and photoperiodic induction and defined the function of a novel florigen target controlling tiller angle.

2024-02-01 | GSE226057 | GEO

DEG of panicle primordia in ZH11 and OsGATA6-AM lines at the In2 and In3 stages

Project description:To investigate how OsGATA6 regulates heading date, grain number per panicle, and grain phenotypes, we collected panicle primordia of ZH11 and OsGATA6-AM lines at the In2 and In3 stages. We analyzed gene expression using a rice expression profiling chip. Compared with ZH11, OsGATA6-AM lines had 818 up-regulated genes and 284 down-regulated genes

2022-06-29 | GSE199873 | GEO

Expression data from additional fertilization rice seeds

2014-08-04 | GSE49818 | GEO

3D epigenome architecture orchestrates cis and trans regulation of flowering time in rice [ChIP-seq]

Project description:Repressive epigenetic modification histone H3 lysine 27 tri-methylation (H3K27me3) marks many agronomically important genes in plants. However, H3K27me3-associated three-dimensional (3D) genome architecture and its regulatory functions in rice flowering time remain unclear. In this study, we map H3K27me3-associated genome topology using long-read ChIA-PET and reveal extensive chromatin loops among H3K27me3-marked regions in different rice varieties and tissues. Multiple H3K27me3-associated chromatin loops usually tether together and further form repressive chromatin interacting domains (RIDs), which provide structural bases for the regulation of the co-modification and co-expression of interacting genes. Surprisingly, we identified extensive chromatin loops between the rice florigen genes Hd3a and RFT1, and frequent chromatin interactions between the positive flowering regulator Ehd1 on the chromosome 10 and Hd3a/ RFT1 loci on the chromosome 6. These results suggest that flowering genes might form a Ehd1-Hd3a/RFT1-centered spatial gene cluster in rice. We also demonstrate the flowering regulator protein complexes comprising Ghd7, Ghd8, and Hd1 could bind to the Ehd1-Hd3a/RFT1 spatial gene cluster. In addition, liquid-liquid phase separation of Ghd7 and Hd1, as well as the essentially synchronous expression of Ehd1 and Hd3a suggest that this spatial gene cluster acts as a regulatory hub to coordinately regulates the expression of Ehd1-Hd3a. This work uncovers the frame of integrated cis and trans molecular mechanism underlying transcriptional regulation of florigen genes in rice.

2022-09-28 | GSE214069 | GEO

3D epigenome architecture orchestrates cis and trans regulation of flowering time in rice [ChIA-PET]

2022-09-28 | GSE214050 | GEO

Expression data from additional fertilization rice seeds

Project description:Carbon (C) and nitrogen (N) contents of grain-filling stage are keys item that determined the growth of rice, and also the quality of seed. Therefore, to elucidating the mechanism of C/N signaling in a seed is an important problem for crops whose seed is used as food like rice. The DNA microarray analysis with the rice seed which was performed the additional fertilizer at the time of heading, in order to clarify how C/N signal change of the rhizosphere in seed production stage affects a seed component on a gene expression level. Fertilization was supplied at the same time of plantation and performed middle fertilizing 37 days after germination. 400 mg of ammonium chloride (NH4 Cl) was supplied at the time of heading to the “ + NH4 Cl ” group. Rice seeds were selected from 6 plants for RNA extraction, and hybridization on Affymetrix microarrays. We sought to understand the change of gene expression by the additional fertilization.

2014-08-04 | E-GEOD-49818 | biostudies-arrayexpress

PREMATURE INTERNODE ELONGATION 1 coordinates internode elongation in response to florigenic signals at the shoot apex of rice

Project description:Flowering of several plant species is induced by exposure to specific photoperiods that promote the expression of florigenic proteins in the leaves and their subsequent translocation to the shoot apex, where they commit the meristem to a reproductive fate. Transition to reproductive growth at the apex is often accompanied by stem elongation, to expose flowers above the leaves and facilitate fertilization. However, how growth and inflorescence formation are coupled and how photoperiodic signals coordinate these processes at the apex is still unclear. We studied these mechanisms in rice, a short day plant. Here, we show that HEADING DATE 3a (Hd3a) and RICE FLOWERING LOCUS T 1 (RFT1), encoding components of the rice florigenic signal, are sufficient to repress expression of PREMATURE INTERNODE ELONGATION 1 (PINE1) at the shoot apex during the transition to flowering, thus promoting culm elongation. PINE1 encodes a nuclear C2H2 zinc finger transcriptional repressor that controls the mRNA abundance of GA3ox2, a gibberellin (GA) biosynthetic gene. These data uncover the existence of a regulatory network coordinating multiple aspects of phase transition, and indicate that GA-induced growth and activity of florigenic proteins at the shoot apex need to be strictly coupled.

2018-11-30 | GSE90493 | GEO

LIC phosphorylated by PI4Kγ7, LC-MS/MS

Project description:High yield and wide adaptation of rice is of significance for more grain supply and food security. Here, we report a type II phosphatidylinositol 4-kinase, PI4Kγ7, harboring a PI3/PI4 kinase domain, which positively regulates rice yield and affords wide adaptation of rice. We show that PI4Kγ7 interacts with a CCCH-type zinc finger transcription factor, OsLIC. Further investigations discover that PI4Kγ7 modulates rice yield by facilitating the stability and cytoplasm-to-nucleus translocation of OsLIC through phosphorylation. To identify the residue(s) being phosphorylated by PI4Kγ7, we performed a liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis

2025-12-08 | PXD068616 | Pride

OsMAINTENANCE OF MERISTEM LIKE 1 controls style number at high temperatures in rice

Project description:OsMAIL1 encodes for a rice protein of the Plant Mobile Domain (PMD) family and is strongly upregulated during floral induction in response to the presence of the florigens Heading date 3a (Hd3a) and RICE FLOWERING LOCUS T1 (RFT1). Although OsMAIL1 expression depends on the florigens, osmail1 null mutants do not show delay in flowering time, rather OsMAIL1 participates in ensuring successful reproduction. Indeed, when day temperatures reach 35°C (7°C higher than standard greenhouse conditions), osmail1 mutants show increased sterility due to abnormal pistil development with about half of the plants developing three styles topped by stigmas. OsMAIL1 expression correlates with that of carpel identity genes and RNA-seq of osmail1-1 mutant compared to the wt during inflorescence development showed that OsMAIL1 is required to activate carpel identity genes expression when floral meristems are about to be initiated. OsMAIL1 is a newly characterized rice gene that specifically controls carpel development under heat stress, ensuring plant female fertility in these conditions

2025-11-30 | GSE280795 | GEO

Hd3a, RFT1 and Ehd1 integrate photoperiodic and drought stress signals to delay the floral transition in rice

Project description:Plants show a high degree of developmental plasticity in response to external cues, including day length and environmental stress. Water scarcity in particular can interfere with photoperiodic flowering, resulting in the acceleration of the switch to reproductive growth in several species, a process called drought escape. However, other strategies are possible and drought stress can also delay flowering, albeit the underlying mechanisms have never been addressed at the molecular level. We investigated these interactions in rice, a short day species in which drought stress delays flowering. A protocol that allows the synchronization of drought with the floral transition was set up to profile the transcriptome of leaves subjected to stress under distinct photoperiods. We identified clusters of genes that responded to drought differently depending on day length. Exposure to drought stress under floral-inductive photoperiods strongly reduced transcription of EARLY HEADING DATE 1 (Ehd1), HEADING DATE 3a (Hd3a) and RICE FLOWERING LOCUS T 1 (RFT1), primary integrators of day length signals, providing a molecular connection between stress and the photoperiodic pathway. However, phenotypic and transcriptional analyses suggested that OsGIGANTEA (OsGI) does not integrate drought and photoperiodic signals as in Arabidopsis, highlighting molecular differences between between long and short day model species.

2017-03-01 | GSE78972 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data