TOP TEN perturbations for P59467 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: P59467
Selected probe(set): 257548_s_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of P59467 (257548_s_at) across 3243 perturbations tested by GENEVESTIGATOR:

shift low light to dark to high light (mbs1-1) / shift low light to dark (mbs1-1)

Relative Expression (log2-ratio):1.0719776
Number of Samples:2 / 3
Experimental shift low light to dark to high light (mbs1-1)
Shoot samples of 12-day-old mbs1-1 plants grown on solid 0.5x Murashige and Skoog medium with 1% sucrose under continuous light (for the last 7 days at 10µmol photons m-2 s-1), then shifted to darkness for 3h, and then exposed to high light (1000µmol photons m-2 s-1) for 3h.
Control shift low light to dark (mbs1-1)
Shoot samples of 12-day-old mbs1-1 plants grown on solid 0.5x Murashige and Skoog medium with 1% sucrose under continuous light (for the last 7 days at 10µmol photons m-2 s-1), then shifted to darkness for 3h.

cordycepin (3h) / untreated cell samples

Relative Expression (log2-ratio):0.806746
Number of Samples:3 / 3
Experimental cordycepin (3h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, cordycepin (an inhibitor of transcription) was added to the final concentration of 200μg/ml and the cell suspension was grown further for 3h prior harvesting the cells.
Control untreated cell samples
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. The cells were harvested seven days after the last subculturing.

cold / cordycepin (24h+3h) / cordycepin (3h)

Relative Expression (log2-ratio):-0.63160944
Number of Samples:3 / 3
Experimental cold / cordycepin (24h+3h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, the cell suspension was transferred to 4°C, continuous light (40µmol photons m-2 s-1) for 24h, then cordycepin (an inhibitor of transcription) was added to the final concentration of 300μg/ml and the cell suspension was grown further for 3h prior harvesting the cells.
Control cordycepin (3h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, cordycepin (an inhibitor of transcription) was added to the final concentration of 200μg/ml and the cell suspension was grown further for 3h prior harvesting the cells.

germination (24h) / seed desiccation

Relative Expression (log2-ratio):-0.5596657
Number of Samples:3 / 3
Experimental germination (24h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), stratified at 4°C in darkness for 48h, and then transferred to continuous light (100µmol photons m-2 s-1) at 22°C for 24h.
Control seed desiccation
Col-0 seeds were harvested and allowed to dessicate for 15 days in darkness.

germination (48h) / seed desiccation

Relative Expression (log2-ratio):-0.5335884
Number of Samples:3 / 3
Experimental germination (48h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), stratified at 4°C in darkness for 48h, and then transferred to continuous light (100µmol photons m-2 s-1) at 22°C for 48h.
Control seed desiccation
Col-0 seeds were harvested and allowed to dessicate for 15 days in darkness.

cold / cordycepin (24h+6h) / cold study 14 (24h)

Relative Expression (log2-ratio):0.5243287
Number of Samples:3 / 3
Experimental cold / cordycepin (24h+6h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, the cell suspension was transferred to 4°C, continuous light (40µmol photons m-2 s-1) for 24h, then cordycepin (an inhibitor of transcription) was added to the final concentration of 300μg/ml and the cell suspension was grown further for 6h prior harvesting the cells.
Control cold study 14 (24h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, the cell suspension was transferred to 4°C, continuous light (40µmol photons m-2 s-1) for 24h, then the cells were harvested.

non-polysomal RNA study 2 (pab2 pab8) / total RNA study 3 (pab2 pab8)

Relative Expression (log2-ratio):0.45594835
Number of Samples:3 / 3
Experimental non-polysomal RNA study 2 (pab2 pab8)
Non-polysomal (monosomal and free) mRNA was isolated from shoots of 10-12 days old pab2 pab8 seedlings grown on solid medium (1x Murashige and Skoog salts, 1% (w/v) sucrose; pH 5.7) under continuous light (80µmol photons m-2 s-1) at 22°C.
Control total RNA study 3 (pab2 pab8)
Total RNA was isolated from shoots of 10-12 days old pab2 pab8 seedlings grown on solid medium (1x Murashige and Skoog salts, 1% (w/v) sucrose; pH 5.7) under continuous light (80µmol photons m-2 s-1) at 22°C.

non-polysomal RNA study 2 (Col-0) / total RNA study 3 (Col-0)

Relative Expression (log2-ratio):0.4223113
Number of Samples:4 / 3
Experimental non-polysomal RNA study 2 (Col-0)
Non-polysomal (monosomal and free) mRNA was isolated from shoots of 10-12 days old Col-0 seedlings grown on solid medium (1x Murashige and Skoog salts, 1% (w/v) sucrose; pH 5.7) under continuous light (80µmol photons m-2 s-1) at 22°C.
Control total RNA study 3 (Col-0)
Total RNA was isolated from shoots of 10-12 days old Col-0 seedlings grown on solid medium (1x Murashige and Skoog salts, 1% (w/v) sucrose; pH 5.7) under continuous light (80µmol photons m-2 s-1) at 22°C.

salt / FACS (48h) / root epidermis and lateral root cap protoplast samples of mock treated pWER::GFP (1h)

Relative Expression (log2-ratio):-0.42195606
Number of Samples:3 / 3
Experimental salt / FACS (48h)
Root epidermis and lateral root cap protoplast samples were obtained by FACS-sorting of protoplasts isolated from whole roots of pWER::GFP seedlings that had been grown for 5 days on a mesh placed on top of standard medium, then transferred (together with the mesh) on standard medium supplemented with 140mM NaCl for 48h. Standard medium: 1x Murashige and Skoog salts, 0.5g/L MES, 1% sucrose, 1% agar; pH 5.7; prior protoplasting the seedlings were kept under 16h light / 8h dark cycles. FACS, Fluorescence Activated Cell Sorting.
Control root epidermis and lateral root cap protoplast samples of mock treated pWER::GFP (1h)
Root epidermis and lateral root cap protoplast samples were obtained by FACS-sorting of protoplasts isolated from whole roots of pWER::GFP seedlings that had been grown for 5 days on a mesh placed on top of standard medium, then transferred (together with the mesh) on fresh standard medium for 1h. Standard medium: 1x Murashige and Skoog salts, 0.5g/L MES, 1% sucrose, 1% agar; pH 5.7; prior protoplasting the seedlings were kept under 16h light / 8h dark cycles. FACS, Fluorescence Activated Cell Sorting.

cordycepin (1h) / untreated cell samples

Relative Expression (log2-ratio):0.38277483
Number of Samples:3 / 3
Experimental cordycepin (1h)
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. Seven days after the last subculturing, cordycepin (an inhibitor of transcription) was added to the final concentration of 200μg/ml and the cell suspension was grown further for 1h prior harvesting the cells.
Control untreated cell samples
T87 cell suspension was grown in JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under continuous light (80µmol photons m-2 s-1), 22°C, orbital shaking at 120rpm, subculturing every 2 weeks at 20-fold dilution. The cells were harvested seven days after the last subculturing.