Ontology highlight
ABSTRACT:
PROVIDER: PRJNA167806 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR502857.fastq.gz | Fastqsanger.gz | |||
| SRR502858.fastq.gz | Fastqsanger.gz | |||
| SRR502859.fastq.gz | Fastqsanger.gz | |||
| SRR502860.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:This SuperSeries is composed of the following subset Series: GSE38358: Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA (ChIP-Seq) GSE38362: Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA (mRNA) Refer to individual Series
2012-05-31 | E-GEOD-38363 | biostudies-arrayexpress
Project description:Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA (mRNA)
| PRJNA167821 | ENA
Project description:Molecular basis for the specification of floral organs by APETALA3 and PISTILLATA (ChIP-Seq)
| PRJNA167820 | ENA
Project description:The gene expression profiles of inflorescences of the floral homeotic mutants apetala1, apetala2, apetala3, pistillata, and agamous were compared to wild-type inflorescences using a flower-specific cDNA array (GSM21001-21015) and a "whole-genome" oligonucleotide array (Operon) (GSM21016-21035). All experiments were performed at least in triplicate. This SuperSeries is composed of the SubSeries listed below.
2004-05-02 | GSE1275 | GEO
Project description:In angiosperms, flower patterning requires the localized expression of the APETALA3 (AP3) floral homeotic gene involved in petal and stamen development. AP3 is synergistically induced by the master transcription factor LEAFY (LFY) and the F-box protein UNUSUAL FLORAL ORGANS (UFO), but the molecular mechanism underlying this synergy has remained unknown. Here we show that the connection to ubiquitination pathways suggested by the F-box domain of UFO is mostly dispensable and that UFO instead acts by forming a transcriptional complex with LFY on newly discovered regulatory elements. The cryo-electron microscopy structure of the UFO-LFY-DNA complex shows that UFO-DNA contacts allows relocating LFY to novel DNA sites. Finally, we show that this complex has a deep evolutionary origin, largely predating flowering plants. This work unravels an unsuspected role for a member of one of the largest protein families in plants as a modulator of the DNA binding specificity of a master TF.
2023-01-01 | GSE204793 | GEO
Project description:<p>Diversification of transcription factors and of their downstream targets can contribute to new organ morphologies. An example is rice lodicule, a small fleshy petal analogue that aids floret opening, thus facilitates pollination and fertility. To understand the mechanism underlying its specification, we investigated the developmental functions of the rice PISTILLATA (PI) paralogs, OsMADS2 and OsMADS4. Null osmads2 mutants reiterated OsMADS2 nonredundant lodicule specification roles and importantly revealed new roles in flowering time and floral organ number and fate in multiple whorls. Doubly perturbed <i>osmads2d8/d8 osmads4kd</i> florets had severe abnormalities and initiated parthenocarpy. Remarkably, ubiquitous OsMADS4 overexpression rescued osmads2 abnormalities, though impaired anther development and seed setting. Target genes whose (in)direct regulation can contribute to OsMADS2 functions were discovered by identifying its genome-wide binding regions and by transcriptome profiling. Several OsMADS2 targets are implicated in lodicule and stamen development, floral organ number, cell wall, cell shape and osmotic homeostasis processes. Altogether, we reveal novel roles for the rice PI paralogs, e.g. panicle exsertion and embryo sac differentiation and provide mechanistic insights on their diversification and functions in floral organ specification.</p>
2025-09-14 | GSE260916 | GEO
Project description:Diversification of transcription factors and of their downstream targets can contribute to new organ morphologies. An example is rice lodicule, a small fleshy petal analogue that aids floret opening, thus facilitates pollination and fertility. To understand the mechanism underlying its specification, we investigated the developmental functions of the rice PISTILLATA (PI) paralogs, OsMADS2 and OsMADS4. Null osmads2 mutants reiterated OsMADS2 nonredundant lodicule specification roles and importantly revealed new roles in flowering time and floral organ number and fate in multiple whorls. Doubly perturbed osmads2d8/d8 27 osmads4kd florets had severe abnormalities and initiated parthenocarpy. Remarkably, ubiquitous OsMADS4 overexpression rescued osmads2 abnormalities, though impaired anther development and seed setting. Target genes whose (in)direct regulation can contribute to OsMADS2 functions were discovered by identifying its genome-wide binding regions and by transcriptome profiling. Several OsMADS2 targets are implicated in lodicule and stamen development, floral organ number, cell wall, cell shape and osmotic homeostasis processes. Altogether, we reveal novel roles for the rice PI paralogs, e.g. panicle exsertion and embryo sac differentiation and provide mechanistic insights on their diversification and functions in floral organ specification
2025-09-14 | GSE260918 | GEO
Project description:Flower development is a dynamics process in which floral organs are produced from pools of stem cells residing in meristems (Smyth et al., 1990). In order to obtain a high resolution map of the changes of gene expression during this process thus to provide insights into specific expression patterns and their underlying gene regulatory networks, an inducible system which allows us to obtain synchronized flowers (Wellmer et al., 2006) was used to collect stage-specific floral tissues at four stages (stages 0, 2, 4 and 8) for transcriptome profiling by RNA-seq . These stages represent the status of inflorescence meristem, floral meristem specification, floral organ specification and floral organ differentiation, respectively during Arabidopsis flower development.
2018-11-06 | GSE110500 | GEO
Project description:Plants have evolved a unique and conserved developmental program that enables the conversion of leaves into floral organs. Elegant genetic and molecular work has identified key regulators of floral meristem identity. However, further understanding of flower meristem specification has been hampered by redundancy and by pleiotropic effects. The KNOXI gene STM transcription factor is a well-characterized regulator of shoot apical meristem maintenance. stm loss-of-function mutants arrest shortly after germination, and therefore the knowledge on later roles of STM, including flower development, is limited. Here, we uncover a role for STM in the specification of flower meristem identity. Silencing STM in the AP1 expression domain in the ap1-4 mutant background resulted in a complete leafy-like flower phenotype and an intermediate stm-2 allele enhanced the floral meristem identity phenotype of ap1-4. Transcriptional profiling of STM perturbation suggested that STM activity affects multiple meristem identity and flower transition genes, among them the F-Box gene UFO. In agreement, stm-2 enhanced the ufo-2 floral meristem fate phenotype, and ectopic UFO expression rescued the leafy flowers in genetic backgrounds with compromised AP1 and STM activities. This work suggests a molecular mechanism that underlies the activity of STM in the specification of flower meristem identity.
2018-05-04 | GSE113894 | GEO
Project description:The molecular mechanisms by which floral homeotic genes act as major developmental switches to specify the identity of floral organs, are still largely unknown. Floral homeotic genes encode transcription factors of the MADS-box family, which are supposed to assemble in a combinatorial fashion into organ-specific multimeric protein complexes. Major mediators of protein interactions are MADS-domain proteins of the SEPALLATA subfamily, which play a crucial role in the development of all types of floral organs. In order to characterize the roles of the SEPALLATA3 transcription factor complexes at the molecular level, we analyzed genome-wide the direct targets of SEPALLATA3. We used chromatin immunoprecipitation followed by ultrahigh-throughput sequencing or hybridization to whole-genome tiling arrays to obtain genome-wide DNA-binding patterns of SEPALLATA3. The results demonstrate that SEPALLATA3 binds to thousands of sites in the genome. Most potential target sites that were strongly bound in wild-type inflorescences, are also bound in the floral homeotic agamous mutant, which displays only the perianth organs, sepals and petals. Characterization of the target genes shows that SEPALLATA3 integrates and modulates different growth-related and hormonal pathways in a combinatorial fashion with other MADS-box proteins and possibly with non-MADS transcription factors. In particular, the results suggest multiple links between SEPALLATA3 and auxin signaling pathways. Our gene expression analyses link the genomic binding site data with the phenotype of plants expressing a dominant repressor version of SEPALLATA3, suggesting that it modulates auxin response to facilitate floral organ outgrowth and morphogenesis. Furthermore, the binding of the SEPALLATA3 protein to cis-regulatory elements of other MADS-box genes and expression analyses reveal that this protein is a key component in the regulatory transcriptional network underlying the formation of floral organs. ChIP experiments were performed on Arabidopsis wildtype and agamous mutant inflorescences using an antibody raised against a C-terminal peptide of SEP3. As control, ChIP experiments were performed on the sep3 mutant.
2009-04-20 | E-GEOD-14600 | biostudies-arrayexpress