TOP TEN perturbations for AT3G62430 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: AT3G62430
Selected probe(set): 251238_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of AT3G62430 (251238_at) across 3240 perturbations tested by GENEVESTIGATOR:

ABA study 11 (3h) / solvent treated cell samples (3h)

Relative Expression (log2-ratio):1.4794703
Number of Samples:2 / 2
Experimental ABA study 11 (3h)
Cell samples of T87 cell suspension that was grown in modified JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under 16h light / 8h dark cycles, 24°C, on a rotary shaker at 100rpm with subculturing every 7 days and then, at the exponential phase of growth, exposed to 25μM ABA (abscisic acid) for 3h.
Control solvent treated cell samples (3h)
Cell samples of T87 cell suspension that was grown in modified JPL medium (Axelos et al., 1992, Plant Physiol Biochem. 30: 123-128) under 16h light / 8h dark cycles, 24°C, on a rotary shaker at 100rpm with subculturing every 7 days and then, at the exponential phase of growth, exposed to 0.6% ethanol for 3h.

35S::AlcR-AlcA::KLUmut / 35S::AlcR-AlcA::KLU

Relative Expression (log2-ratio):-1.4690104
Number of Samples:2 / 2
Experimental 35S::AlcR-AlcA::KLUmut
Homozygous klu-2 mutant carrying constructs for EtOH-inducible overexpression of enzymatically inactive KLU (Arabidopsis cytochrome P450 KLUH) protein (35S::AlcR-AlcA::KLUmut).
Control 35S::AlcR-AlcA::KLU
Homozygous klu-2 mutant carrying constructs for EtOH-inducible overexpression of wild-type KLU (Arabidopsis cytochrome P450 KLUH) protein (35S::AlcR-AlcA::KLU).

BL/H3BO3 (10d) / untreated cell culture samples

Relative Expression (log2-ratio):1.3656502
Number of Samples:2 / 2
Experimental BL/H3BO3 (10d)
Cells were transferred into medium that included 1 uM brassinolide and 10 mM H3BO3 for 10d.
Control untreated cell culture samples
No brassinolide applied (timepoint 0).

nas4x-1 / Col

Relative Expression (log2-ratio):-1.3416438
Number of Samples:3 / 3
Experimental nas4x-1
Quadruple knockdown mutant (nas1-1 = GABI-Kat 223A09 nas2-1 = SAIL_156C08 nas3-1 = GABI-Kat 010A10 nas4-1 = SALK_135507) with T-DNA insertions in the four members of the NAS (NICOTIANAMINE SYNTHASE) gene family (NAS1 = At5g04950; NAS2 = At5g56080; NAS3 = At1g09240; NAS4 = At1g56430). NAS synthesizes nicotianamine, chelator and transporter of micronutrients Fe, Cu, and Zn. Out of the four genes only NAS2 is expressed to a certain extent in the nas4x-1 mutant. Compared to Col-0 wild type, nicotianamine levels are reduced to 10% in nas4x-1 rosette leaves at the vegetative phase, to undetectable levels in nas4x-1 rosette leaves at the reproductive phase, and to 40% in nas4x-1 seeds. When grown on soil, nas4x-1 has minor leaf chlorosis during the vegetative growth phase and becomes more chlorotic during the transition to reproductive growth. When grown hydroponically in the presence of iron for 4 weeks and then transferred to iron-lacking medium for 1 week, nas4x-1 plants develop more severe leaf chlorosis than the wild type. Under metal-sufficient conditions, Fe, Cu and Zn contents did not differ in nas4x-1 and the wild type roots, but differences in metal contents have been found in aboveground organs: compared to the wild type, vegetative nas4x-1 leaves had less Zn; nas4x-1 leaves at the reproductive phase had more Fe, less Zn, and slightly less Cu; nas4x-1 flowers had less Fe and Zn, siliques had less Fe, Zn, and Cu, seeds had less Fe. Compared to the wild type, nas4x-1 is more sensitive to Ni, which is also chelated by nicotianamine (Klatte et al., 2009, Plant Physiol. 150: 257-271).
Control Col
Arabidopsis ecotype Columbia. Origin: Poland. Altitude of the origin ≈ 200m (Duruflé et al., 2019, Data Brief. 25: 104318).

BL/H3BO3 (8d) / untreated cell culture samples

Relative Expression (log2-ratio):1.2440243
Number of Samples:2 / 2
Experimental BL/H3BO3 (8d)
Cells were transferred into medium that included 1 uM brassinolide and 10 mM H3BO3 for 8d.
Control untreated cell culture samples
No brassinolide applied (timepoint 0).

ABA study 7 (agb1-2 gpa1-4) / solvent treated guard cell samples (agb1-2 gpa1-4)

Relative Expression (log2-ratio):1.2396135
Number of Samples:2 / 3
Experimental ABA study 7 (agb1-2 gpa1-4)
Isolated guard cell samples of 5 weeks old Arabidopsis thaliana agb1-2 gpa1-4 T-DNA insertion double mutant plants, treated with 50mM ABA for 3h.
Control solvent treated guard cell samples (agb1-2 gpa1-4)
Guard cell samples of 5 weeks old Arabidopsis thaliana agb1-2 gpa1-4 T-DNA insertion double mutant plants, treated with EtOH for 3h.

BL/H3BO3 (4d) / untreated cell culture samples

Relative Expression (log2-ratio):1.2169247
Number of Samples:2 / 2
Experimental BL/H3BO3 (4d)
Cells were transferred into medium that included 1 uM brassinolide and 10 mM H3BO3 for 4d.
Control untreated cell culture samples
No brassinolide applied (timepoint 0).

iron deficiency study 7 (Col) / untreated leaf samples (Col)

Relative Expression (log2-ratio):1.2032971
Number of Samples:3 / 3
Experimental iron deficiency study 7 (Col)
Leaf samples of Col wild type grown for 4 weeks hydroponically in 1/4 strength Hoagland salt solution (pH 6.0) containing 10µM FeNa-EDTA, then shifted for 1 week to 1/4 strength Hoagland salt solution lacking iron. Other plant growth conditions: 16h light (150μmol photons m-2 s-1) at 21°C / 8h dark at 19°C. Composition of Hoagland salt solution: 0.1875mM MgSO4 × 7H2O, 0.125mM KH2PO4, 0.3125mM KNO3, 0.375mM Ca(NO3)2, 12.5μM KCl, 12.5μM H3BO3, 2.5μM MnSO4 × H2O, 0.5μM ZnSO4 × 7H2O, 0.375μM CuSO4 × 5H2O, 0.01875μM (NH4)6Mo7O24 × 4H2O.
Control untreated leaf samples (Col)
Leaf samples of Col wild type grown for 5 weeks hydroponically in 1/4 strength Hoagland salt solution (pH 6.0) containing 10µM FeNa-EDTA under 16h light (150μmol photons m-2 s-1) at 21°C / 8h dark at 19°C cycles. Composition of Hoagland salt solution: 0.1875mM MgSO4 × 7H2O, 0.125mM KH2PO4, 0.3125mM KNO3, 0.375mM Ca(NO3)2, 12.5μM KCl, 12.5μM H3BO3, 2.5μM MnSO4 × H2O, 0.5μM ZnSO4 × 7H2O, 0.375μM CuSO4 × 5H2O, 0.01875μM (NH4)6Mo7O24 × 4H2O.

heat study 4 / untreated plant samples

Relative Expression (log2-ratio):1.1868081
Number of Samples:2 / 2
Experimental heat study 4
Plant samples, grown in vitro under long day conditions at 22°C for three weeks, then exposed to 37°C for 30h (heat exposure started 3h after beginning of the light phase).
Control untreated plant samples
Plant samples, grown in vitro under long day conditions at 22°C for three weeks followed by additional 30h at the same temperature.

Alc::TOC1 / Col-0

Relative Expression (log2-ratio):1.1382203
Number of Samples:3 / 3
Experimental Alc::TOC1
Transgenic line carrying two constructs (ethanol-inducible system): 1) the coding region of TOC1 cDNA under control of Aspergillus nidulans AlcA promoter and NOS terminator (effector construct); 2) The coding region of A. nidulans AlcR under control of the constitutive CaMV35S promoter and NOS terminator (regulator construct). Expression from the AlcA promoter requires the active form of AlcR. AlcR is constitutively expressed but is inactive in the absence of ethanol. In the presence of ethanol, AlcR becomes active, induces the AlcA promoter and thus induces (over)expression of TOC1 (Knowles et al., 2008, J Biol Rhythms 23: 463-471). TOC1 (timing of CAB expression, At5g61380) encodes a component of the central oscillator of Arabidopsis circadian system.
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).