E-TABM-19
Ontology highlight
ABSTRACT:
PROVIDER: E-TABM-19 | ExpressionAtlas | 2015-06-11
REPOSITORIES: ExpressionAtlas
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| E-TABM-19-analysis-methods.tsv | Tabular | |||
| E-TABM-19-atlasExperimentSummary.Rdata | Rdata | |||
| E-TABM-19-configuration.xml | Xml | |||
| E-TABM-19-percentile-ranks.tsv | Tabular | |||
| E-TABM-19.condensed-sdrf.tsv | Tabular |
Items per page: 5 1 - 5 of 167 |
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Project description:Plants of three different genotypes (FRI FLC, FRI flc and fri flc) were induced to flowering by shifting from short day conditions to long day conditions. FRI=FRIGIDA, FLC=FLOWERING LOCUS C.
2005-09-08 | E-TABM-19 | biostudies-arrayexpress
Project description:Polyploidy is a widespread phenomenon in flowering plant species. Polyploid plants frequently exhibit considerable transcriptomic alterations after whole-genome duplication (WGD). It is known that the transcriptomic response to tetraploidization is ecotype-dependent in Arabidopsis. Nevertheless, the biological significance and the underlying mechanism are unknown. Here, we showed that 4x Col-0 and 4x Ler presented different flowering times, with a delayed flowering time in 4x Col-0 but not in 4x Ler. We found that the expression of FLOWERING LOCUS C (FLC), the major repressor of flowering, was significantly increased in 4x Col-0 but subtle change in 4x Ler. Moreover, the level of a repressive epigenetic mark, trimethylation of histone H3 at lysine 27 (H3K27me3), was significantly decreased in 4x Col-0 but not in 4x Ler, potentially leading to different transcription levels of FLC and flowering time in 4x Col-0 and 4x Ler. Apart from the FLC locus, hundreds of genes showed differentially H3K27me3 alterations in 4x Col-0 and 4x Ler. Comparably, LIKE HETEROCHROMATIN PROTEIN 1 (LHP1) and transcription factors required for H3K27me3 deposition presented differential transcriptional changes between 4x Col and Ler, potentially account for differential H3K27me3 alterations in 4x Col-0 and Ler. Last, we found that the natural 4x Arabidopsis ecotype Wa-1 presented early flowering time, associated with low expression and high H3K27me3 of FLC. Taken together, our results showed a role of H3K27me3 alterations in response to genome duplication in Arabidopsis autopolyploids and that flowering time variation potentially functions in autopolyploid speciation.
2022-01-01 | GSE185114 | GEO
Project description:Summary StSP6A is a protein with sequence homology to the Arabidopsis FLOWERING LOCUS T (FT). FT is a main component of the long range flowering promoting signal or florigen that induces photoperiodic flowering under long days (LDs). In potato, short days (SDs) promote tuber induction, and wild subspecies like Solanum tuberosum ssp andigena (wild type line 7540) are strictly dependent on SDs to tuberize. StSP6A transcription is induced in leaves and stolons at early stages upon transfer to SD inductive conditions, priotr to visible solon swelling. Transgenic andigena lines over-expressing the StSP6A gene under the control of the 35S promoter are able to tuberize under LD non-inductive conditions, whereas silencing of this gene by means of an specific RNAi construct are strongly delayed in tuber induction in SD inductive conditions. This data indicate that StSP6A plays a central role in the control of tuber induction.
2011-10-06 | GSE31178 | GEO
Project description:Plants grow continuously and undergo numerous changes in their vegetative morphology and physiology during their life span. The molecular basis of these changes is largely unknown. To provide a more comprehensive picture of shoot development in Arabidopsis, microarray analysis was used to profile the mRNA content of shoot apices of different ages, as well as leaf primordia and fully-expanded leaves from 6 different positions on the shoot, in early-flowering and late-flowering genotypes. This extensive dataset provides a new and unexpectedly complex picture of shoot development in Arabidopsis. At any given time, the pattern of gene expression is different in every leaf on the shoot, and reflects the activity at least 6 developmental programs. Three of these are specific to individual leaves (leaf maturation, leaf aging, leaf senescence), two occur at the level of the shoot apex (vegetative phase change, floral induction), and one involves the entire shoot (shoot aging). Our results demonstrate that vegetative development is a much more dynamic process that previously imagined, and provide new insights into the underlying mechanism of this process.
2019-11-30 | GSE122691 | GEO
Project description:In plants, endogenous and environmental signals such as light control the timing of the transition to flowering . Two phytochrome B-interacting transcription factors, VASCULAR PLANT ONE–ZINC FINGER1 (VOZ1) and VOZ2 redundantly promote flowering in Arabidopsis thaliana. In the voz1 voz2 mutant the expression of FLOWERING LOCUS C (FLC) was up-regulated and expression of FLOWERING LOCUS T (FT) was down-regulated, which was proposed to be the cause of late flowering in voz1 voz2. However, the detailed mechanism by which the VOZ genes promote flowering is not well understood. Here, we show that neither the reduced FT-expression nor the late-flowering phenotype of voz1 voz2 is suppressed in the voz1 voz2 flc triple mutant . Genetic interaction experiments between voz1 voz2 and constans-2 (co-2) mutants reveal that the VOZs and CO work in the same genetic pathway. Using in vitro pull-down, electrophoretic mobility shift assays and bimolecular fluorescence complementation assays, we show that VOZ1 and VOZ2 interact with CO. The voz1 voz2 35S::CO:YFP plants show suppression of the early-flowering phenotype induced by CO-overexpression, showing that CO requires VOZ for induction of flowering. Determination of the VOZ consensus binding site followed by genome-wide sequence analysis failed to identify any VOZ-binding sites near known flowering-time genes. Together, these results indicate that the VOZ genes regulate flowering primarily through the photoperiod pathway, independent of FLC, and suggest that VOZs modulate CO function to promote flowering.
2018-04-18 | GSE111342 | GEO
Project description:Summary StSP6A is a protein with sequence homology to the Arabidopsis FLOWERING LOCUS T (FT). FT is a main component of the long range flowering promoting signal or florigen that induces photoperiodic flowering under long days (LDs). In potato, short days (SDs) promote tuber induction, and wild subspecies like Solanum tuberosum ssp andigena (wild type line 7540) are strictly dependent on SDs to tuberize. StSP6A transcription is induced in leaves and stolons at early stages upon transfer to SD inductive conditions, priotr to visible solon swelling. Transgenic andigena lines over-expressing the StSP6A gene under the control of the 35S promoter are able to tuberize under LD non-inductive conditions, whereas silencing of this gene by means of an specific RNAi construct are strongly delayed in tuber induction in SD inductive conditions. This data indicate that StSP6A plays a central role in the control of tuber induction. For each sample of the two comparisons (35S-StSP6A versus Wild Type and StSP6A-RNAi versus Wild Type) two biological replicates were prepared. In the case of 35S-StSP6A and StSP6A-RNAi each replicate was composed by a pool of several transgenic lines.
2011-10-05 | E-GEOD-31178 | biostudies-arrayexpress
Project description:Arabiposis plants with conbinations of different FRIGIDA (FRI) and FLOWERING LOCUS C (FLC) alleles grown in short days (9L:15D) for 30 days at 21°C, then shifted to long days (16L:8D). Genotypes: Columbia wild type (Col-0): fri FLC Columbia with introgressed FRI from Sf-2: FRI FLC Columbia with introgressed FRI and deleted FLC (flc-3): FRI flc Columbia with deleted FLC (flc-3): fri flc Time points: 0, 2, and 4 days after shift to long days Keywords = flowering Keywords: time-course
2003-08-06 | GSE577 | GEO
Project description:The transition to reproductive development is a critical step in the plant lifecycle that relies on the integration of intrinsic and environmental signals. Several different pathways have been described for the control of flowering time that function downstream of the perception of environmental cues such as day length (photoperiodic pathway) and seasonal temperature (vernalization and ambient temperature pathways). In addition, the phytohormone gibberellin (GA) induces the floral transition under non-inductive photoperiod. In the model plant Arabidopsis thaliana, the transcriptional repressor VAL1/HSI2 triggers the stable repression of the floral repressor FLOWERING LOCUS C (FLC) during vernalization. However, the involvement of VAL1 in other flowering pathways has remained unclear. In this work, we combined a genetic and transcriptomic approach to investigate the requirement of VAL1 for the activation of flowering at different day length conditions. We found that VAL1, and not its sister protein VAL2, is required to induce the floral transition both under long and short days. Specifically in short days, the delayed flowering time of val1 mutant plants can be fully bypassed by the exogenous application of GA. We have been able to demonstrate that VAL1 induction of flowering occurs via the direct epigenetic repression of the organ boundary genes BLADE ON PETIOLE 1 (BOP1) and BOP2. Our work thus expands the repertoire of VAL target genes and further demonstrates the pleiotropic role of VAL factors in the regulation of Arabidopsis development.
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Project description:Flowering of Arabidopsis is induced at the shoot meristem by environmental and endogenous signals. FLOWERING LOCUS T (FT) protein is a systemic signal that induces rapid flowering in response to long summer days (LDs) whereas gibberellin (GA) growth regulators trigger flowering by default in short days (SDs). Mutations in the bZIP transcription factor FDP, which physically interacts to FT, cause late flowering and dwarfism. In order to study the genetic pathways affected by FDP, we compared the global transcriptome changes of Col-0 plants carrying a fusion of the strong ubiquitously expressed CaMV35S promoter to an FDP DsRNAi construct (35S::FDP dsRNA).
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Project description:Plants integrate seasonal cues such as temperature and day length to optimally adjust their flowering time to the environment. Compared to the control of flowering before and after winter by the vernalization and day length pathways, mechanisms that delay or promote flowering during a transient cool or warm period, especially during spring, are less well known. Due to global warming, understanding this ambient temperature pathway has become increasingly important. FLOWERING LOCUS M (FLM) is one critical flowering regulator of this pathway in Arabidopsis thaliana. We identified the Arabidopsis accession Kil-0 as an early flowering strain when compared to the common reference accession Col-0. Genetic mapping of this trait identified a causative region of around 31 kb at the bottom of chromosome one. Within this region, only FLOWERING LOCUS M (FLM) was expressed at a significantly lower level in Kil-0 when comparing RNA-seq (RNA sequencing) data from 10-day old Kil-0 and Col-0 plants grown at 21C. Furthermore, FLM was also the gene with the greatest reduction in gene expression between Kil-0 and Col-0 when we specifically analyzed 267 genes with a role in flowering time regulation what strongly suggested that FLM is the major locus that results in accelerated flowering in Kil-0.
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