GEO DataSets

(Submitter supplied) Plants of Solanum tuberosum ssp andigena, which tuberize only under SD conditions, were grown in growth chambers under non-inductive LD conditions and half of the plants were transferred to inductive SD conditions for 1 or 15 days, whilst the rest of the plants were kept as controls in LD. Transgenic potato plants with reduced phyB levels, which tuberize irrespective of photoperiod, were also grown in LD conditions. more...

Organism:

Solanum tuberosum; Nicotiana sylvestris; Solanum tuberosum subsp. andigenum; Nicotiana tabacum

Type:

Expression profiling by array

Platform:

GPL1901

28 Samples

Download data: GPR

(Submitter supplied) The phytochromes (PHYs) are a family of photoreceptors which absorb red and far-red light to modulate developmental responses in photosynthetic organisms. We developed knockout mutants of PHYB and PHYC in tetraploid wheat and performed RNA-seq studies to analyze and compare the regulons of each phytochrome under short day photoperiods.

Organism:

Triticum turgidum subsp. durum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27807

12 Samples

Download data: TXT

(Submitter supplied) The phytochromes (PHYs) are a family of photoreceptors which absorb light of red and far-red wavelengths to modulate developmental responses in photosynthetic organisms. We developed knockout mutants of PHYB and PHYC in wheat and performed replicated RNA-seq studies to analyze and compare the regulons of each phytochrome under long day photoperiods.

Organism:

Triticum turgidum subsp. durum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19107

32 Samples

Download data: FA, TXT

(Submitter supplied) Six different Solanaceae species, Potato (Solanum tubersosum), Tomato (Lycopersicum esculentum), Pepper (Capsicum annuum), Tobacco (Nicotiana tabaccum), Petunia and Nicotiana benthiamana were grown at 25C, 16h light and 8h darkness. Mature leaves were harvested after 4-6 weeks. RNA was isolated using Qiagen RNeasy. Tomato, pepper, petunia, tobacco and N. benthamiana samples were hybridized against potato samples. more...

Organism:

Solanum lycopersicum; Nicotiana tabacum; Solanum tuberosum; Capsicum annuum; Nicotiana benthamiana; Petunia x hybrida

Type:

Expression profiling by array

Dataset:

GDS2302

Platform:

GPL1901

10 Samples

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Comparison of leaves of Potato to those of 5 other members of the Solanaceae family. The Solanaceae is a family of closely related species with diverse phenotypes that is exploited for agronomic purposes. Results provide insight into the phylogenetic similarity among the six Solanaceae species.

Organism:

Capsicum annuum; Solanum lycopersicum; Nicotiana tabacum; Nicotiana benthamiana; Petunia x hybrida; Solanum tuberosum

Type:

Expression profiling by array, log2 ratio, 5 species sets

Platform:

GPL1901

Series:

GSE3380

10 Samples

Download data

(Submitter supplied) Two aspects of light are very important for plant development: the length of the light phase or photoperiod and the quality of incoming light. Photoperiod detection allows plants to anticipate the arrival of the next season, whereas light quality, mainly the red to far-red ratio (R:FR), is an early signal of competition by neighbouring plants. phyB represses flowering by antagonising CO at the transcriptional and post-translational levels. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

12 Samples

Download data: CEL

(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1704

Platform:

GPL198

8 Samples

Download data

(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1702

Platform:

GPL198

4 Samples

Download data

(Submitter supplied) Phytochromes mediate a profound developmental shift when dark-grown seedlings are exposed to light. Here we show that a subset of genes is up regulated in phytochrome B (phyB) mutants even before dark-grown seedlings are exposed to light. Most of these genes bear the RY cis motif, which is a binding site of the transcription factor ABSCISIC ACID INSENSITIVE 3 (ABI3), and the phyB mutation also enhanced ABI3 expression. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1703

Platform:

GPL2598

4 Samples

Download data

Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 4 genotype/variation sets

Platform:

GPL198

Series:

GSE3038

8 Samples

Download data

Analysis of dark grown Ler seedlings mutant for phytochromes A and B, or cryptochromes cry1 and cry2, or both. Results provide insight into the structure of the signaling network between the photoreceptor families and the target developmental genes that respond to light.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 4 genotype/variation sets

Platform:

GPL2598

Series:

GSE2919

4 Samples

Download data

Analysis of dark-grown Col phytochrome mutants given 1 hour of white light to induce germination, followed by 3 days in darkness. Phytochromes mediate a profound developmental shift upon light exposure. Results reveal signaling network paths between photoreceptors and target developmental genes.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL198

Series:

GSE3002

4 Samples

Download data

(Submitter supplied) Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long (15h) and short (13h) photoperiod. Three separate replicates (5 plants/replicate) were treated to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. Potted, spur-pruned two to six-year-old vines were removed from cold storage (Seyval 3-19-07; V. more...

Organism:

Vitis vinifera; Vitis hybrid cultivar; Vitis riparia

Type:

Expression profiling by array

Platform:

GPL1320

84 Samples

Download data: CEL

(Submitter supplied) our analysis uncovered the role of histone deacetylation in light-regulated seed germination process and identified that HDA15-PIF1 as a key repression module directing the transcription network of seed germination

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

6 Samples

Download data: TXT

(Submitter supplied) We analyzed the transcriptome change during photoperiodic regulation of potato tuber formation

Organism:

Solanum tuberosum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16436

5 Samples

Download data: TXT

(Submitter supplied) Growth daylength, ambient CO2 level, and intracellular hydrogen peroxide (H2O2) availability all impact plant function by modulating signalling pathways, but interactions between them remain unclear. Using a whole-genome transcriptomics approach, we exploited the conditional photorespiratory nature of the catalase-deficient cat2 mutant to identify gene expression patterns responding to these three factors. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL198

30 Samples

Download data: CEL

(Submitter supplied) Sensing environmental changes is important for survival of plants, as sessile organisms, in habi-tat. Recently, latitudinal clines in leaf senescence have been reported to be influenced by tem-perature and photoperiod. However, the relationship of light quality with latitudinal response of leaf senescence is still unclear. Here, we found that Arabidopsis accessions in far-red (FR) showed a strong negative correlation of leaf senescence with the latitude of their origin. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL14727

12 Samples

Download data: TXT

(Submitter supplied) The present study quantifies the transcriptomes of wild-type and transgenic Ubi::OsYHB rice seedlings (in the genetic background of Oryza sativa ssp. japonica CV Nipponbare) grown in the dark or under continous red light (Rc, at 50 µmol m-2 s-1) conditions.

Organism:

Oryza sativa Japonica Group; Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

8 Samples

Download data: CEL