TOP TEN perturbations for Q9FLM3 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: Q9FLM3
Selected probe(set): 249290_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of Q9FLM3 (249290_at) across 3240 perturbations tested by GENEVESTIGATOR:

35S:RPS4-HS eds1-2 / 35S:RPS4-HS

Relative Expression (log2-ratio):-2.6267328
Number of Samples:3 / 3
Experimental 35S:RPS4-HS eds1-2
Transgenic mutant line over-expressing Col-0 RPS4 (tagged with HA-StrepII) from the constitutive CaMV35S promoter and carrying fast neutron generated 939bp deletion in the coding region of the EDS1 (ENHANCED DISEASE SUSCEPTIBILITY1, At3g48090) gene (the deletion includes part of the exon 2, exon 3, part of the exon 4, and introns 2 and 3). RPS4 (At5g45250) is a TNL (Toll/Interleukin-1 (TIR) type nucleotide-binding domain leucine-rich repeat (NB-LRR)) receptor that recognizes bacterial Type III secreted effector AvrRps4. RPS4 is localized both at the membranes of endoplasmic reticulum and in the nucleus. EDS1 is a nucleus-cytoplasmic immune-regulator required for basal resistance against virulent pathogens and for TNL receptor-mediated effector-triggered immunity. Function of RPS4 depends on EDS1. 35S:RPS4-HS eds1-2 plants are similar to Col-0 wild type in terms of rosette diameter when grown at 19°C-22°C or 28°C for 3.5 weeks. At 19-22°C, 35S:RPS4-HS eds1-2 plants are slightly more sensitive to virulent Pseudomonas syringae pv. tomato strain DC3000 than the wild type and equally sensitive as the eds1-2 mutant without the 35S:RPS4-HS transgene (i.e. basal resistance of 35S:RPS4-HS eds1-2 is compromised). At 19-22°C, 35S:RPS4-HS eds1-2 is as sensitive to P. syringae pv. tomato strain DC3000 expressing AvrRps4 as eds1-2 whereas Col-0 wild type and 35S:RPS4-HS (plants with the transgene and wild type EDS1) are resistant. When grown at 28°C for 3.5 weeks and then shifted to 19°C, 35S:RPS4-HS eds1-2 plants, like the wild type, show neither leaf chlorosis nor cell death (Wirthmueller et al., 2007, Curr Biol. 17: 2023-2029; Heidrich et al., 2013, Front Plant Sci. 4: 403; Falk et al., 1999, PNAS 96: 3292-3297).
Control 35S:RPS4-HS
Transgenic line over-expressing Col-0 RPS4 (tagged with HA-StrepII) from the constitutive CaMV35S promoter. RPS4 (At5g45250) is a TNL (Toll/Interleukin-1 (TIR) type nucleotide-binding domain leucine-rich repeat (NB-LRR)) receptor that recognizes bacterial Type III secreted effector AvrRps4. RPS4 is localized both at the membranes of endoplasmic reticulum and in the nucleus. Presence of RPS4 in the nucleus is necessary for triggering the immune response but recognition of AvrRps4 does not change the distribution of RPS4. When grown at 19-22°C for 3.5 weeks, 35S:RPS4-HS plants are severely stunted (rosette diameter of 35S:RPS4-HS is reduced by approx. 62% compared to that of Col-0 wild type). At 19-22°C, 35S:RPS4-HS plants are more resistant to virulent Pseudomonas syringae pv. tomato strain DC3000 than the wild type (i.e. basal resistance is enhanced in 35S:RPS4-HS). At 19-22°C, 35S:RPS4-HS is slightly more resistant to P. syringae pv. tomato strain DC3000 expressing AvrRps4 than Col-0 wild type (although the wild type is also quite resistant as its endogenous RPS4 recognizes AvrRps4). When plants are grown at 28°C for 3.5 weeks, diameter of 35S:RPS4-HS rosettes is similar to that of wild type rosettes. When grown at 28°C for 3.5 weeks and then shifted to 19°C, 35S:RPS4-HS plants show leaf chlorosis and cell death (i.e. overexpression of RPS4-HS triggers temperature-dependent auto-immune response) (Wirthmueller et al., 2007, Curr Biol. 17: 2023-2029; Heidrich et al., 2013, Front Plant Sci. 4: 403).

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

Relative Expression (log2-ratio):2.5845642
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.

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

Relative Expression (log2-ratio):2.103837
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).

germination (24h) / seed desiccation

Relative Expression (log2-ratio):2.102888
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.

shift 28°C to 19°C study 2 (35S:RPS4-HS rrs1-11) / 28°C (35S:RPS4-HS rrs1-11)

Relative Expression (log2-ratio):2.0955896
Number of Samples:3 / 3
Experimental shift 28°C to 19°C study 2 (35S:RPS4-HS rrs1-11)
Leaf samples of 35S:RPS4-HS rrs1-11 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 rrs1-11)
Leaf samples of 35S:RPS4-HS rrs1-11 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.

germination (48h) / seed desiccation

Relative Expression (log2-ratio):2.0596714
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.

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

Relative Expression (log2-ratio):-1.6786795
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.

L. huidobrensis (Col-0) / untreated rosette leaf samples (Col-0)

Relative Expression (log2-ratio):-1.6698561
Number of Samples:3 / 3
Experimental L. huidobrensis (Col-0)
Rosette leaf samples of Col-0 plants grown for 4 weeks (16h light (120µmol m-2 s-1) / 8h dark; 22°C), then treated with Liriomyza huidobrensis (pea leafminer) (mated L. huidobrensis adults were placed on the leaves for 4h oviposition, layed eggs were allowed to hatch and larvae were allowed to grow to the second instar (96h after oviposition)). Other conditions: the plants were first (for 2-3 weeks) grown on solid 1/2 strength Murashige and Skoog medium, then potted into a mixture of peat and vermiculite (1:2).
Control untreated rosette leaf samples (Col-0)
Rosette leaf samples of Col-0 plants grown for 32 days under 16h light (120µmol m-2 s-1) / 8h dark cycles at 22°C. The plants were first (for 2-3 weeks) grown on solid 1/2 strength Murashige and Skoog medium, then potted into a mixture of peat and vermiculite (1:2).

germination (1h) / seed desiccation

Relative Expression (log2-ratio):1.6486111
Number of Samples:2 / 3
Experimental germination (1h)
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 1h.
Control seed desiccation
Col-0 seeds were harvested and allowed to dessicate for 15 days in darkness.

drought study 17 (10d) / untreated Col-0 flower bud samples (10d)

Relative Expression (log2-ratio):-1.5918198
Number of Samples:2 / 2
Experimental drought study 17 (10d)
Closed flower bud samples of Col-0 plants grown without water limitation (90% soil moisture, i.e. 90g H2O per 100g dry soil mixture in a pot without drainage holes) for 24 days (beginning of bolting, the main stem approx.1cm high), then subjected to drought stress by withholding water for 3 days (at the end of this period soil moisture was approx. 35%) and maintaining 35% soil moisture for 7 more days (by adding the needed amount of water). In order to accelerate the soil water evaporation, relative air humidity in the chamber was maintained at 30% during the first 3 days of the drought-treatment. Other plant growth conditions: 1 plant per pot; soil mixture was Metro-Mix 360 soil (Sun Gro Horticulture Canada) and Turface profile greens grade (Profile Products) at 3 to 2 ratio (v:v); Conviron growth chamber, 16h light (300μmol photons m-2 s-1) / 8h dark, 22°C, 60% relative air humidity (except during the first 3 days of the drought-treatment).
Control untreated Col-0 flower bud samples (10d)
Closed flower bud samples of Col-0 plants grown without water limitation (90% soil moisture, i.e. 90g H2O per 100g dry soil mixture in a pot without drainage holes) for 34 days (flowering). Other plant growth conditions: 1 plant per pot; soil mixture was Metro-Mix 360 soil (Sun Gro Horticulture Canada) and Turface profile greens grade (Profile Products) at 3 to 2 ratio (v:v); Conviron growth chamber, 16h light (300μmol photons m-2 s-1) / 8h dark, 22°C, 60% relative air humidity.