TOP TEN perturbations for AT1G67635 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: AT1G67635
Selected probe(set): 260198_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of AT1G67635 (260198_at) across 3240 perturbations tested by GENEVESTIGATOR:

P. syringae pv. tomato study 9 (DC3118 Cor-) / mock inoculated leaf samples

Relative Expression (log2-ratio):2.9532719
Number of Samples:3 / 2
Experimental P. syringae pv. tomato study 9 (DC3118 Cor-)
Arabidopsis Col-5 leaf samples from plants, inoculated with Pseudomonas syringae pv. tomato mutant DC3118 Coronatine- bacteria at a concentration of 5x10e7 cfu/ml for 10h.
Control mock inoculated leaf samples
Arabidopsis Col-5 leaf samples from plants, inoculated with a mock inoculum of distilled/deionized water for 10h.

P. syringae pv. tomato study 9 (DC3118 Cor-hrpS) / P. syringae pv. tomato study 9 (DC3118 Cor-)

Relative Expression (log2-ratio):-2.8808575
Number of Samples:3 / 3
Experimental P. syringae pv. tomato study 9 (DC3118 Cor-hrpS)
Arabidopsis Col-5 leaf samples from plants, inoculated with Pseudomonas syringae pv. tomato double mutant DC3118 Coronatine-hrpS bacteria at a concentration of 5x10e7 cfu/ml for 10h.
Control P. syringae pv. tomato study 9 (DC3118 Cor-)
Arabidopsis Col-5 leaf samples from plants, inoculated with Pseudomonas syringae pv. tomato mutant DC3118 Coronatine- bacteria at a concentration of 5x10e7 cfu/ml for 10h.

CMP (24h) / solvent treated root culture samples (24h)

Relative Expression (log2-ratio):1.7179804
Number of Samples:3 / 3
Experimental CMP (24h)
Col-0 root culture samples, that were treated 14d after culture initiation with CMP (4-chloro-6-methyl-2-phenylpyrimidine; 100uM) dissolved in acetone for 24h.
Control solvent treated root culture samples (24h)
Col-0 root culture samples, that were treated 14d after culture initiation with 0.1% v/v acetone for 24h.

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

Relative Expression (log2-ratio):-1.5845671
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).

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

Relative Expression (log2-ratio):-1.4101577
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 3 (35S:RPS4-HS) / 28°C (35S:RPS4-HS)

Relative Expression (log2-ratio):1.326518
Number of Samples:3 / 3
Experimental shift 28°C to 19°C study 3 (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 24h. 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.

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

Relative Expression (log2-ratio):1.1488123
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.

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

Relative Expression (log2-ratio):0.9822688
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-2 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix Two-Cycle Eukaryotic Target Labeling Assay kit.
Control 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-2 s-1) at 24°C. For microarrays RNA was labeled using Affymetrix One-Cycle Eukaryotic Target Labeling Assay kit.

CS57586 / Bay-0 parent

Relative Expression (log2-ratio):0.92470264
Number of Samples:2 / 8
Experimental CS57586
Recombinant inbred line (RIL) CS57586 derived from the cross Bay-0 x Sha (Loudet et al., 2002, Theor Appl Genet. 104: 1173–1184; West et al., 2007, Genetics 175: 1441-1450).
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).

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

Relative Expression (log2-ratio):0.9052782
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.