TOP TEN perturbations for AT5G41310 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: AT5G41310
Selected probe(set): 249296_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of AT5G41310 (249296_at) across 3240 perturbations tested by GENEVESTIGATOR:

MeJa (late) / opr3 stamen samples (0h)

Relative Expression (log2-ratio):1.0153837
Number of Samples:3 / 3
Experimental MeJa (late)
Stamens of opr3 mutants were treated with 0.03% methyl jasmonate and stamens were harvested 22h after treatment.
Control opr3 stamen samples (0h)
Stamens of opr3 mutants were treated with 0.03% methyl jasmonate and stamens were harvested at several time-point 0h after treatment (=control of time series).

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

Relative Expression (log2-ratio):0.97540617
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.

Bl-1 / Bay-0 parent

Relative Expression (log2-ratio):-0.5707288
Number of Samples:3 / 3
Experimental Bl-1
Arabidopsis accession: Bologna 1. NASC ID: N968.
Control Bay-0 parent
Single seed descent line from the Bay-0 parent of Bay-0 x Shahdara cross (NASC ID: N57923; ABRC stock No.: CS57923).

IVT-E RNA labeling (root elongation zone) / two-cycle RNA labeling (root elongation zone)

Relative Expression (log2-ratio):-0.46040297
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-2 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix GeneChip 3' IVT-Express Kit.
Control 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-2 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix Two-Cycle Eukaryotic Target Labeling Assay kit.

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

Relative Expression (log2-ratio):0.43755817
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.

Bl-1 / Sha

Relative Expression (log2-ratio):-0.43001795
Number of Samples:3 / 3
Experimental Bl-1
Arabidopsis accession: Bologna 1. NASC ID: N968.
Control Sha
Arabidopsis accession Shakdara. Origin: Pamiro-Alay, Tajikistan (latitude 39.2501, longitude 68.2499, altitude 3400m; mean annual temperature 0.5°C, accumulated annual rain 893mm, accumulated annual radiation 1787.4kWh/m2). When 4-day-old Sha 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. 7% compared to that of control Sha seedlings grown for 4+6 days at SWC of 2.2g H2O g-1 dry soil. When 4-day-old Sha 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. 63% compared to that of control Sha 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; Duruflé et al., 2019, Front Plant Sci. 10: 430).

salicylic acid study 13 (CS57513) / mock treated rosette leaf samples (CS57513)

Relative Expression (log2-ratio):0.41443348
Number of Samples:2 / 2
Experimental salicylic acid study 13 (CS57513)
Rosette leaf samples of CS57513 grown for 6 weeks in a growth chamber (8h light (100-120µmol photons m-2 s-1) / 16h darkness; 20°C), then sprayed to run-off with 0.3mM salicylic acid 0.02% Silwet L77 solution, and incubated for 28h.
Control mock treated rosette leaf samples (CS57513)
Rosette leaf samples of CS57513 grown for 6 weeks in a growth chamber (8h light (100-120µmol photons m-2 s-1) / 16h darkness; 20°C), then sprayed to run-off with 0.02% Silwet L77 solution, and incubated for 28h.

germination (48h) / seed desiccation

Relative Expression (log2-ratio):-0.4130144
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.

Bay-0 parent / C24

Relative Expression (log2-ratio):0.40623617
Number of Samples:3 / 3
Experimental Bay-0 parent
Single seed descent line from the Bay-0 parent of Bay-0 x Shahdara cross (NASC ID: N57923; ABRC stock No.: CS57923).
Control C24
Arabidopsis accession comparatively tolerant to ozone: ozone treated (400nl L-1 O3 for 6h) C24 shows less cell death than ozone treated Te-0 accession. When plants are exposed to 400nl L-1 ozone for 4h, both stomatal O3 uptake rate and cumulative O3 dose received by the plants during the treatment are lower in C24 than in Te-0 (Xu et al., 2015, Plant Cell Environ. 38: 1418-1433). In the study by (Nakano et al., 2020, Front Plant Sci. 11: 405), aluminum tolerance of C24 was 14.6; 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.

Bay-0 parent / Col-0

Relative Expression (log2-ratio):0.40558243
Number of Samples:3 / 3
Experimental Bay-0 parent
Single seed descent line from the Bay-0 parent of Bay-0 x Shahdara cross (NASC ID: N57923; ABRC stock No.: CS57923).
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).