Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Diurnal gene expression in rosette leaves of the phosphoglucomutase mutant (Col-0)

ABSTRACT: How do transcript levels of leaf-expressed genes change in a normal day-night cycle of the phosphoglucomutase (pgm) mutant? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rhythm at 20°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested in series at 6 times every 4 hours, beginning with the end of the night (still in darkness). Keywords: repeat

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE3424 | GEO | 2005/12/01

SECONDARY ACCESSION(S): PRJNA93457

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Diurnal gene expression in Arabidopsis thaliana Col-0 rosette leaves

Project description:How do the transcript levels of leaf-expressed genes change in a normal day-night cycle? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rythm at 20°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested at 6 timepoints every 4 hours beginning with the end of the night (still in darkness). Keywords: repeat

2005-12-01 | GSE3416 | GEO

Transcription profiling of Arabidopsis diurnal gene expression in rosette leaves of the phosphoglucomutase mutant (Col-0)

Project description:How do transcript levels of leaf-expressed genes change in a normal day-night cycle of the phosphoglucomutase (pgm) mutant? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rhythm at 20Â°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested in series at 6 times every 4 hours, beginning with the end of the night (still in darkness). Experiment Overall Design: A diurnal time series (8 times) was analyzed.

2008-06-12 | E-GEOD-3424 | biostudies-arrayexpress

Transcription profiling of diurnal gene expression in Arabidopsis thaliana Col-0 rosette leaves

Project description:How do the transcript levels of leaf-expressed genes change in a normal day-night cycle? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rythm at 20Â°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested at 6 timepoints every 4 hours beginning with the end of the night (still in darkness).

2007-06-28 | E-GEOD-3416 | biostudies-arrayexpress

Carbon fixation (endogenous sugar) and light-dependent gene expression

Project description:Internal sugar and light specific dependent regulation of leaf gene expression was addressed by changing [CO2] to lower than compensation point [CO2] in combination with light or prolonged darkness. Plants were grown on soil in a 12/12 h light/dark rhythm at 20°C day and night and under normal [CO2]. 5 weeks after germination, the above-ground rosettes of the non-flowering plants were harvested, 12 plants per sample. Plants were harvested 4hrs after the end of night (i) under low (< 50 ppm) [CO2] and 150 µE fluorescent light , (ii) under normal [CO2] and light, and, (iii) under low [CO2] and prolonged darkness. The low [CO2] treatment started 30 min before the end of night and stopped with harvesting. Keywords: repeat

2005-12-01 | GSE3423 | GEO

Transcription profiling of Arabidopsis leaf gene expression after growth under low light and low CO2

Project description:Internal sugar and light specific dependent regulation of leaf gene expression was addressed by changing [CO2] to lower than compensation point [CO2] in combination with light or prolonged darkness. Plants were grown on soil in a 12/12 h light/dark rhythm at 20Â°C day and night and under normal [CO2]. 5 weeks after germination, the above-ground rosettes of the non-flowering plants were harvested, 12 plants per sample. Plants were harvested 4hrs after the end of night (i) under low (< 50 ppm) [CO2] and 150 ÂµE fluorescent light , (ii) under normal [CO2] and light, and, (iii) under low [CO2] and prolonged darkness. The low [CO2] treatment started 30 min before the end of night and stopped with harvesting. Experiment Overall Design: 2 biological replicates of plants under 3 treatments (4hrs low CO2+light, 4hrs low CO2+prolonged darkness, and 4hrs normal CO2+light).

2008-06-12 | E-GEOD-3423 | biostudies-arrayexpress

Clock-controlled diurnal gene expression changes on a genome-wide scale

Project description:au14-07_clock - llhh clock transcriptome - Correlate clock-controlled diurnal gene expression changes with H2Bub chromatin mark changes on a genome-wide scale. - Wild type seedlings(Col-0)have been grown under Light/Dark conditions(12 h Light:12 h Dark)and thermocycles(23°C day:19°C night).After 10 days of entrainment, the conditions were switched to continuous light and temperature (LLHH) for 2 days. Seedlings have been harvested the 2nd day after the switch at Zeitgeber time 24 and 36 that correspond to dawn and dusk, respectively. llhh clock transcriptome-LLHH clock transcriptome.

2017-02-01 | GSE93340 | GEO

proteomics analysis of wheat flag leaf in heat stress

Project description:Wheat plants (T. aestivum cv. Chinese Spring) were grown in a greenhouse and watered daily to avoid drought stress. The main stem ears were labelled when flowering. At 12 days after anthesis, the plants were transferred to growth chambers with a temperature regime of 24/17◦C (14 h/10 h) day/night cycle. At 15 days after anthesis, half of the plants were applied a temperature regime of 37/17◦C for 3 days and were harvested on the 4th day after 4 h under heat with light; the remaining plants were kept at 24/17◦C as a control and were harvested at the same sampling time.

2017-07-07 | PXD006207 | Pride

Cold acclimation responses of Arabidopsis thaliana and Eutrema salsugineum (Thellungiella salsuginea)

Project description:Arabidopsis thaliana and Eutrema salsugineum show the ability to cold acclimate. However, the degree of freezing tolerance depends in both cases on the accession. To elucidate the transcriptional basis of this differencial freezing tolerance, we performed where we grew plants under control conditions (20°C/18°C day/night) or under cold conditions (additional 4°C for 2 weeks). Rosettes were harvested from non-acclimated and cold acclimated plants for RNA isolation. Expression patterns were compared between treatments, accessions and species.

2018-01-01 | GSE100108 | GEO

Transcript inhibition from limited starch degradation

Project description:In starchless mutants of Arabidopsis, pgm, and wild type, Col0, there are small differences in transcript levels at the end of the day, but large differences at the end of the night. Many of the transcripts of genes involved in biosynthesis and growth are repressed in the pgm mutant (Thimm et al., 2004). It is hypothesized that a transient depletion in sugars at the end of the night inhibits carbon utilization at the beginning of the day (Gibon et al., 2004). In order to test if the same inhibition of transcripts involved in biosynthesis and growth also occurs in starch excess mutants of Arabidopsis, Affymetrix arrays will be generated for WT (Col0), and the following mutants: sex4-3 (Salk 102567), ptpkis2 (Salk 053285), and sex1-3 (Yu et al., 2001). WT, sex4-3, and ptpkis2 plants were grown for 30 days and sex1-3 plants were grown for 36 days. All plants were grown in a growth chamber with a 12 hour photoperiod, quantum flux 100 mol m-2s-1, relative humidity was at least 75%, and a constant temperature of 20oC. Three leaves from 8 different plants of each genotype were harvested using a green safe lamp 0.5 hours before the lights came on in the morning and immediately frozen in LN2. Leaf material was powered using a mortar and pestle and RNA was extracted using a Purescript RNA isolation kit (Gentra Systems, MN, USA). Samples were then treated with DNaseI (Invitrogen, CA, USA).

2009-12-05 | GSE19260 | GEO

mir398 mutant analysis-Analysis of miR398 mutants.

Project description:adt07-03_mir398-mutants - mir398 mutant analysis - Defining new targets of miR398 by transcriptome analysis of two miR398 mutant alleles. - Plants were grown on soil in culture chambers under the following conditions, a day/night cycle of 16/8 hours was applied, light intensity was around 100-150 umol m-2 s-1, temperature day/night was 20/15°C. Plants were harvested 17 days later and RNAs were then extracted. The experiment was repeated twice. Keywords: gene knock out

2008-07-11 | GSE10672 | 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