TOP TEN perturbations for AT5G05850 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: AT5G05850
Selected probe(set): 250745_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of AT5G05850 (250745_at) across 3240 perturbations tested by GENEVESTIGATOR:

salt study 2 (late) / untreated root samples (late)

Relative Expression (log2-ratio):2.4607887
Number of Samples:6 / 6
Experimental salt study 2 (late)
At day 16, stress treatment started at 3 hours of light treatment. Salt stress (150 mM NaCl) was applied. NaCl was added to a concentration of 150 mM in the Media. To add NaCl the raft was lifted out. A magnetic stir bar and a stirrer were used to mix the media and the added NaCl. After the rafts were put back in the boxes, they were transferred back to the climate chamber. Roots were harvested at 6, 12 and 24 h after onset of treatment.
Control untreated root samples (late)
No treatment; control of root samples for time-points 6, 12 and 24 h.

flg22 study 6 (Ler) / flg22 study 8 (1h)

Relative Expression (log2-ratio):2.4433355
Number of Samples:3 / 3
Experimental flg22 study 6 (Ler)
Leaf disc samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions were treated with 100nM flg22 and collected after 1 hour.
Control flg22 study 8 (1h)
Leaf disc samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions were treated with 100nM Agrobacterium flg22 and collected after 1 hour.

cycloheximide / mock treated seedlings

Relative Expression (log2-ratio):2.2895412
Number of Samples:2 / 2
Experimental cycloheximide
Cycloheximide (protein synthesis inhibitor); 10uM CHX for 3h.
Control mock treated seedlings
Mock treatment for 3h.

flg22 + GA (1h) / untreated leaf disc samples (Ler)

Relative Expression (log2-ratio):2.2446175
Number of Samples:3 / 3
Experimental flg22 + GA (1h)
Leaf disc samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions were treated with 100nM flg22 and GA. Samples were collected after 1 hour.
Control untreated leaf disc samples (Ler)
Leaf disk samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions.

cycloheximide / dexamethasone study 2 (pBeaconRFP_GR-ABI3) / mock treated root protoplast samples (pBeaconRFP_GR-ABI3)

Relative Expression (log2-ratio):2.2220592
Number of Samples:3 / 3
Experimental cycloheximide / dexamethasone study 2 (pBeaconRFP_GR-ABI3)
Col-0 root protoplasts were transfected with the pBeaconRFP_GR-ABI3 vector (50μg plasmid DNA / 10^6 protoplasts; polyethylene glycol method), incubated for 16h at room temperature, then treated with 35μM cycloheximide (an inhibitor of protein synthesis) and 10μM dexamethasone for 16h (cycloheximide was added to the protoplasts 30min prior adding dexamethasone). Prior RNA isolation, the successfully transfected protoplasts were harvested using FACS (Fluorescence Activated Cell Sorting), possible due to the expression of mRFP (monomeric red fluorescent protein) from the pBeaconRFP_GR-ABI3 vector.
Control mock treated root protoplast samples (pBeaconRFP_GR-ABI3)
Col-0 root protoplasts were transfected with the pBeaconRFP_GR-ABI3 vector (50μg plasmid DNA / 10^6 protoplasts; polyethylene glycol method), incubated for 16h at room temperature, then mock-treated with solvents, ethanol and DMSO, for 16h. Prior RNA isolation, the successfully transfected protoplasts were harvested using FACS (Fluorescence Activated Cell Sorting), possible due to the expression of mRFP (monomeric red fluorescent protein) from the pBeaconRFP_GR-ABI3 vector.

flg22 study 6 (penta) / untreated leaf disc samples (penta)

Relative Expression (log2-ratio):2.167657
Number of Samples:3 / 3
Experimental flg22 study 6 (penta)
Leaf disc samples of five weeks old penta mutant plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions were treated with 100nM flg22 and collected after 1 hour.
Control untreated leaf disc samples (penta)
Leaf disc samples of five weeks old penta mutant plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions.

flg22 study 6 (Ler) / untreated leaf disc samples (Ler)

Relative Expression (log2-ratio):2.1268578
Number of Samples:3 / 3
Experimental flg22 study 6 (Ler)
Leaf disc samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions were treated with 100nM flg22 and collected after 1 hour.
Control untreated leaf disc samples (Ler)
Leaf disk samples of five weeks old Ler plants grown under short day (8h light / 16h dark, 120μmols-1m-2) conditions.

cycloheximide study 4 (pBeaconRFP_GR-ABI3) / mock treated root protoplast samples (pBeaconRFP_GR-ABI3)

Relative Expression (log2-ratio):2.1167717
Number of Samples:3 / 3
Experimental cycloheximide study 4 (pBeaconRFP_GR-ABI3)
Col-0 root protoplasts were transfected with the pBeaconRFP_GR-ABI3 vector (50μg plasmid DNA / 10^6 protoplasts; polyethylene glycol method), incubated for 16h at room temperature, then treated with 35μM cycloheximide (an inhibitor of protein synthesis) for 16h. Prior RNA isolation, the successfully transfected protoplasts were harvested using FACS (Fluorescence Activated Cell Sorting), possible due to the expression of mRFP (monomeric red fluorescent protein) from the pBeaconRFP_GR-ABI3 vector.
Control mock treated root protoplast samples (pBeaconRFP_GR-ABI3)
Col-0 root protoplasts were transfected with the pBeaconRFP_GR-ABI3 vector (50μg plasmid DNA / 10^6 protoplasts; polyethylene glycol method), incubated for 16h at room temperature, then mock-treated with solvents, ethanol and DMSO, for 16h. Prior RNA isolation, the successfully transfected protoplasts were harvested using FACS (Fluorescence Activated Cell Sorting), possible due to the expression of mRFP (monomeric red fluorescent protein) from the pBeaconRFP_GR-ABI3 vector.

35S::amiR-white-2(MIR172a) / Col-0

Relative Expression (log2-ratio):2.0299473
Number of Samples:2 / 2
Experimental 35S::amiR-white-2(MIR172a)
Constitutive overexpressor of amiR-white-2, engineered into a 410-bp fragment containing the MIR172a stem loop. Bleaching of cotyledons.
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). In the study by (Nakano et al., 2020, Front Plant Sci. 11: 405), aluminum tolerance of Col-0 was 53.3; calculated as: (root length of 5-day-old seedlings grown in the presence of 5µM AlCl3 at pH 5.0 / root length of 5-day-old seedlings grown without Al at pH 5.0) x 100. Col-0 is moderately tolerant to submergence. For example, when rosette-stage Col-0 plants were completely submerged in water for 2 days under short-day conditions, the photosynthetic rate in their leaves decreased by approx. 36.4% compared to untreated Col-0 (Meng et al., 2020, Plant J. 103: 227-247).

atgsnor1-3 / Col-0

Relative Expression (log2-ratio):1.8569927
Number of Samples:2 / 2
Experimental atgsnor1-3
T-DNA insertion in Arabidopsis thaliana S-nitrosoglutathione reductase gene, involved in R gene-mediated defense as well as basal and nonhost disease resistance. Allelic to atgsnor1-1. Mutant shows 21% of the S-nitrosoglutathione reductase activity compared to Col-0 wild type.
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). In the study by (Nakano et al., 2020, Front Plant Sci. 11: 405), aluminum tolerance of Col-0 was 53.3; calculated as: (root length of 5-day-old seedlings grown in the presence of 5µM AlCl3 at pH 5.0 / root length of 5-day-old seedlings grown without Al at pH 5.0) x 100. Col-0 is moderately tolerant to submergence. For example, when rosette-stage Col-0 plants were completely submerged in water for 2 days under short-day conditions, the photosynthetic rate in their leaves decreased by approx. 36.4% compared to untreated Col-0 (Meng et al., 2020, Plant J. 103: 227-247).