TOP TEN perturbations for At5g51890 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: At5g51890
Selected probe(set): 248382_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of At5g51890 (248382_at) across 3243 perturbations tested by GENEVESTIGATOR:

BL/H3BO3 (6d) / untreated cell culture samples

Relative Expression (log2-ratio):4.1540766
Number of Samples:2 / 2
Experimental BL/H3BO3 (6d)
Cells were transferred into medium that included 1 uM brassinolide and 10 mM H3BO3 for 6d.
Control untreated cell culture samples
No brassinolide applied (timepoint 0).

csn3-1 / Col-0

Relative Expression (log2-ratio):-3.9290524
Number of Samples:3 / 3
Experimental csn3-1
COP9 signalosome (CSN) T-DNA insertion mutant (Salk_000593).
Control Col-0
Arabidopsis accession Columbia-0. Origin: Poland; latitude of origin: 52°73'N, longitude of origin: 15°15'E. Col-0 is resistant to the isolate AG8 and susceptible to the isolate AG2-1 of soil-borne necrotrophic fungus Rhizoctonia solani. Freezing tolerance of non-acclimated Col-0 leaves: LT50 (temperature of 50% electrolyte leakage) = −5.34°C; freezing tolerance of Col-0 leaves after acclimation at 4°C under 16h photoperiod (90µmol photons m-2 s-1) for 14 days: LT50 = −9.68°C. Acclimated Col-0 leaves accumulate approx. 20µmol g FW-1 glucose, 10µmol g FW-1 fructose, 20µmol g FW-1 sucrose, 4µmol g FW-1 raffinose, 5.5µmol g FW-1 proline (Zuther et al., 2012, Plant Cell Environ. 35: 1860-1878). Col-0 is comparatively tolerant to ozone: ozone treated (400nl L-1 O3 for 6h) Col-0 shows less cell death than ozone treated Te-0 accession (Xu et al., 2015, Plant Cell Environ. 38: 1418-1433). Col-0 is susceptible to bacterial pathogen Pseudomonas syringae pv tomato (Pst) strain DC3000. As Col-0 carries the resistance gene RPS4 (At5g45250), it is resistant to Pst DC3000 expressing the bacterial effector avrRps4 (Howard et al., 2013, PLoS One 8: e74183). When 4-day-old Col-0 seedlings are exposed to mild drought stress (soil water content (SWC) of 1.2g H2O g-1 dry soil) for 6 days, area of their 3rd rosette leaf is reduced by approx. 30% compared to that of control Col-0 seedlings grown for 4+6 days at SWC of 2.2g H2O g-1 dry soil. When 4-day-old Col-0 seedlings are exposed to mild drought stress for 18 days (SWC is kept at 1.2g H2O g-1 dry soil for the first 6 days, then slowly decreases and is kept at 0.7g H2O g-1 dry soil till the end of the treatment), area of their 3rd rosette leaf is reduced by approx. 59% compared to that of control Col-0 plants grown for 4+18 days at SWC of 2.2g H2O g-1 dry soil (Clauw et al., 2015, Plant Physiol. 167: 800-816).

csn5 (csn5a-2 csn5b) / Col-0

Relative Expression (log2-ratio):-3.899496
Number of Samples:2 / 3
Experimental csn5 (csn5a-2 csn5b)
COP9 signalosome (CSN) T-DNA insertion double mutant.
Control Col-0
Arabidopsis accession Columbia-0. Origin: Poland; latitude of origin: 52°73'N, longitude of origin: 15°15'E. Col-0 is resistant to the isolate AG8 and susceptible to the isolate AG2-1 of soil-borne necrotrophic fungus Rhizoctonia solani. Freezing tolerance of non-acclimated Col-0 leaves: LT50 (temperature of 50% electrolyte leakage) = −5.34°C; freezing tolerance of Col-0 leaves after acclimation at 4°C under 16h photoperiod (90µmol photons m-2 s-1) for 14 days: LT50 = −9.68°C. Acclimated Col-0 leaves accumulate approx. 20µmol g FW-1 glucose, 10µmol g FW-1 fructose, 20µmol g FW-1 sucrose, 4µmol g FW-1 raffinose, 5.5µmol g FW-1 proline (Zuther et al., 2012, Plant Cell Environ. 35: 1860-1878). Col-0 is comparatively tolerant to ozone: ozone treated (400nl L-1 O3 for 6h) Col-0 shows less cell death than ozone treated Te-0 accession (Xu et al., 2015, Plant Cell Environ. 38: 1418-1433). Col-0 is susceptible to bacterial pathogen Pseudomonas syringae pv tomato (Pst) strain DC3000. As Col-0 carries the resistance gene RPS4 (At5g45250), it is resistant to Pst DC3000 expressing the bacterial effector avrRps4 (Howard et al., 2013, PLoS One 8: e74183). When 4-day-old Col-0 seedlings are exposed to mild drought stress (soil water content (SWC) of 1.2g H2O g-1 dry soil) for 6 days, area of their 3rd rosette leaf is reduced by approx. 30% compared to that of control Col-0 seedlings grown for 4+6 days at SWC of 2.2g H2O g-1 dry soil. When 4-day-old Col-0 seedlings are exposed to mild drought stress for 18 days (SWC is kept at 1.2g H2O g-1 dry soil for the first 6 days, then slowly decreases and is kept at 0.7g H2O g-1 dry soil till the end of the treatment), area of their 3rd rosette leaf is reduced by approx. 59% compared to that of control Col-0 plants grown for 4+18 days at SWC of 2.2g H2O g-1 dry soil (Clauw et al., 2015, Plant Physiol. 167: 800-816).

IVT-E RNA labeling (root elongation zone) / IVT-E RNA labeling (root tip)

Relative Expression (log2-ratio):3.7564192
Number of Samples:3 / 3
Experimental IVT-E RNA labeling (root elongation zone)
Root elongation zone samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix GeneChip 3' IVT-Express Kit.
Control IVT-E RNA labeling (root tip)
Root tip samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix GeneChip 3' IVT-Express Kit.

csn4-1 / Col-0

Relative Expression (log2-ratio):-3.69882
Number of Samples:2 / 3
Experimental csn4-1
COP9 signalosome (CSN) T-DNA insertion mutant (Salk_043720).
Control Col-0
Arabidopsis accession Columbia-0. Origin: Poland; latitude of origin: 52°73'N, longitude of origin: 15°15'E. Col-0 is resistant to the isolate AG8 and susceptible to the isolate AG2-1 of soil-borne necrotrophic fungus Rhizoctonia solani. Freezing tolerance of non-acclimated Col-0 leaves: LT50 (temperature of 50% electrolyte leakage) = −5.34°C; freezing tolerance of Col-0 leaves after acclimation at 4°C under 16h photoperiod (90µmol photons m-2 s-1) for 14 days: LT50 = −9.68°C. Acclimated Col-0 leaves accumulate approx. 20µmol g FW-1 glucose, 10µmol g FW-1 fructose, 20µmol g FW-1 sucrose, 4µmol g FW-1 raffinose, 5.5µmol g FW-1 proline (Zuther et al., 2012, Plant Cell Environ. 35: 1860-1878). Col-0 is comparatively tolerant to ozone: ozone treated (400nl L-1 O3 for 6h) Col-0 shows less cell death than ozone treated Te-0 accession (Xu et al., 2015, Plant Cell Environ. 38: 1418-1433). Col-0 is susceptible to bacterial pathogen Pseudomonas syringae pv tomato (Pst) strain DC3000. As Col-0 carries the resistance gene RPS4 (At5g45250), it is resistant to Pst DC3000 expressing the bacterial effector avrRps4 (Howard et al., 2013, PLoS One 8: e74183). When 4-day-old Col-0 seedlings are exposed to mild drought stress (soil water content (SWC) of 1.2g H2O g-1 dry soil) for 6 days, area of their 3rd rosette leaf is reduced by approx. 30% compared to that of control Col-0 seedlings grown for 4+6 days at SWC of 2.2g H2O g-1 dry soil. When 4-day-old Col-0 seedlings are exposed to mild drought stress for 18 days (SWC is kept at 1.2g H2O g-1 dry soil for the first 6 days, then slowly decreases and is kept at 0.7g H2O g-1 dry soil till the end of the treatment), area of their 3rd rosette leaf is reduced by approx. 59% compared to that of control Col-0 plants grown for 4+18 days at SWC of 2.2g H2O g-1 dry soil (Clauw et al., 2015, Plant Physiol. 167: 800-816).

one-cycle RNA labeling (root elongation zone) / one-cycle RNA labeling (root tip)

Relative Expression (log2-ratio):3.612135
Number of Samples:3 / 3
Experimental one-cycle RNA labeling (root elongation zone)
Root elongation zone samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix One-Cycle Eukaryotic Target Labeling Assay kit.
Control one-cycle RNA labeling (root tip)
Root tip samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix One-Cycle Eukaryotic Target Labeling Assay kit.

two-cycle RNA labeling (root elongation zone) / two-cycle RNA labeling (root tip)

Relative Expression (log2-ratio):3.5412817
Number of Samples:3 / 3
Experimental two-cycle RNA labeling (root elongation zone)
Root elongation zone samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix Two-Cycle Eukaryotic Target Labeling Assay kit.
Control two-cycle RNA labeling (root tip)
Root tip samples of Col-0 grown for 7 days on vertically oriented plates containing solid 0.5x Murashige and Skoog medium under continuous light (150µmol photons m-1 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix Two-Cycle Eukaryotic Target Labeling Assay kit.

shift 28°C to 19°C study 2 (35S:RPS4-HS) / 28°C (35S:RPS4-HS)

Relative Expression (log2-ratio):-3.4180517
Number of Samples:3 / 3
Experimental shift 28°C to 19°C study 2 (35S:RPS4-HS)
Leaf samples of 35S:RPS4-HS plants grown for 3.5 weeks on soil at 28°C and then shifted to 19°C for 8h. Other conditions: growth chamber, 10h light (150-200µmol photons m-2 s-1) / 14h dark cycles, 65% relative humidity.
Control 28°C (35S:RPS4-HS)
Leaf samples of 35S:RPS4-HS plants grown for 3.5 weeks on soil at 28°C under 10h light (150-200µmol photons m-2 s-1) / 14h dark cycles, 65% relative humidity.

2,4-D + kinetin study 2 (ckh2-1) / 2,4-D study 2 (ckh2-1)

Relative Expression (log2-ratio):3.344757
Number of Samples:2 / 2
Experimental 2,4-D + kinetin study 2 (ckh2-1)
Hypocotyl segments were cut out from 10-days-old ckh2-1 seedlings (grown under 2.5µmol photons m-2 s-1), placed on solid callus inducing medium containing 100ng/ml 2,4-D (synthetic auxin) and 200ng/ml kinetin (cytokinin) for 3 days at 23°C under continuous light of 100µmol photons m-2 s-1, and then harvested. Other components of the callus inducing medium: 4.32g/l Murashige–Skoog salts, 1% sucrose, 10ml/l of 5% MES, 100mg/l inositol, 10mg/l thiamine-HCl, 1mg/l pyridoxine-HCl, 1mg/l nicotinic acid, 1mg/l biotin, 0.3% Phytagel, pH 5.8.
Control 2,4-D study 2 (ckh2-1)
Hypocotyl segments were cut out from 10-days-old ckh2-1 seedlings (grown under 2.5µmol photons m-2 s-1), placed on solid callus inducing medium containing 100ng/ml 2,4-D (synthetic auxin) for 3 days at 23°C under continuous light of 100µmol photons m-2 s-1, and then harvested. Other components of the callus inducing medium: 4.32g/l Murashige–Skoog salts, 1% sucrose, 10ml/l of 5% MES, 100mg/l inositol, 10mg/l thiamine-HCl, 1mg/l pyridoxine-HCl, 1mg/l nicotinic acid, 1mg/l biotin, 0.3% Phytagel, pH 5.8.

cycloheximide + estradiol (35S:VND7-HER) / cycloheximide study 3 (35S:VND7-HER)

Relative Expression (log2-ratio):3.1813908
Number of Samples:2 / 2
Experimental cycloheximide + estradiol (35S:VND7-HER)
Samples of Arabidopsis leaf protoplasts transfected with the CaMV35S:VND7-HER-RR:NOS (35S:VND7-HER; in the pBI221 vector) construct and then treated with 2μM cycloheximide (an inhibitor of protein synthesis) and 2μM β-estradiol for 6h.
Control cycloheximide study 3 (35S:VND7-HER)
Samples of Arabidopsis leaf protoplasts transfected with the CaMV35S:VND7-HER-RR:NOS (35S:VND7-HER; in the pBI221 vector) construct and then treated with 2μM cycloheximide (an inhibitor of protein synthesis) for 6h.