TOP TEN perturbations for Q9SV61 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: Q9SV61
Selected probe(set): 254801_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of Q9SV61 (254801_at) across 3240 perturbations tested by GENEVESTIGATOR:

dcl1-15 / DCL1 sib

Relative Expression (log2-ratio):1.5042629
Number of Samples:3 / 3
Experimental dcl1-15
EMS-generated mutant with leaky recessive missense mutation (Gly →Glu at amino acid position 1692) in DCL1 (At1g01040). DCL1 (RNase III DICER-LIKE1) is a part of a complex that cleaves precursor miRNA thus generating miRNAs. dcl1-15 embryos develop normally till the early globular stage, then the patterns of cell division become abnormal. dcl1-15 embryos mature faster than the wild type: dcl1-15 embryos start to accumulate chlorophyll already at the early globular stage and are visibly green at the heart stage whereas embryos of the wild type siblings are white at the heart stage (although they start accumulating chlorophyll in the protodermis at this stage); at the heart stage, chloroplasts of dcl1-15 embryos are more developed (more grana stacks per chloroplast, more thylakoids per grana stack) than those of the wild type. dcl1-15 embryos abort late in embryogenesis and this abortion is not due to desiccation intolerance (Willmann et al., 2011, Plant Physiol. 155: 1871-84).
Control DCL1 sib
Wild type sibling of dcl1-15 mutant. DCL1 sib was obtained by backcrossing heterozygous (dcl1-15 DCL1) plants (initially in the Ws genetic background) to Ler wild type at least four times (Willmann et al., 2011, Plant Physiol. 155: 1871-84).

ABA + salicylic acid (3h) / solvent treated cell samples (3h)

Relative Expression (log2-ratio):0.9727397
Number of Samples:2 / 2
Experimental ABA + salicylic acid (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 simultaneously to 25μM ABA (abscisic acid) and 300μM salicylic 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.

germination (24h) / seed desiccation

Relative Expression (log2-ratio):-0.9617171
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.

germination (12h) / seed desiccation

Relative Expression (log2-ratio):-0.9144931
Number of Samples:3 / 3
Experimental germination (12h)
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 12h.
Control seed desiccation
Col-0 seeds were harvested and allowed to dessicate for 15 days in darkness.

lec1-1 / Ws-0

Relative Expression (log2-ratio):0.6860266
Number of Samples:2 / 2
Experimental lec1-1
T-DNA insertion mutant with embryonic intolerance to desiccation.
Control Ws-0
Arabidopsis accession Wassilewskija-0. ABRC stock No.: CS6891. Origin: Vasil’yevka, Belarus.

salicylic acid study 9 (3h) / solvent treated cell samples (3h)

Relative Expression (log2-ratio):0.6706829
Number of Samples:2 / 2
Experimental salicylic acid study 9 (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 300μM salicylic 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.

pollen-pistil interaction (8.0 hap) / unpollinated pistil samples

Relative Expression (log2-ratio):0.58114815
Number of Samples:2 / 2
Experimental pollen-pistil interaction (8.0 hap)
Pistil samples of Arabidopsis thaliana ecotype Columbia plants, collected 8.0h after pollination (8.0 hap).
Control unpollinated pistil samples
Pistil samples of unpollinated Arabidopsis thaliana ecotype Columbia plants.

cold study 16 (p35S:HF-RPL18 (12-2-4)) / cold study 15 (p35S:HF-RPL18 (12-2-4))

Relative Expression (log2-ratio):0.53774214
Number of Samples:3 / 3
Experimental cold study 16 (p35S:HF-RPL18 (12-2-4))
Polysomal RNA from rosettes of p35S:HF-RPL18 (12-2-4) plants grown for 25 days on soil in a growth chamber (16h light (100μmol photons m-2 s-1) / 8h dark cycles) at 23°C, then placed at 4°C (50μmol photons m-2 s-1) for 12h. The cold treatment started 2h after the onset of light (ZT2). Polysomes were isolated by centrifugation through sucrose gradients. Other growth conditions: soil contained 150g of Osmocote 14-14-14 fertilizer (Scotts #90036) and 75g Marathon pesticide (Crop Production Services) per 3.4L.
Control cold study 15 (p35S:HF-RPL18 (12-2-4))
Total RNA from rosettes of p35S:HF-RPL18 (12-2-4) plants grown for 25 days on soil in a growth chamber (16h light (100μmol photons m-2 s-1) / 8h dark cycles) at 23°C, then placed at 4°C (50μmol photons m-2 s-1) for 12h. The cold treatment started 2h after the onset of light (ZT2). Other growth conditions: soil contained 150g of Osmocote 14-14-14 fertilizer (Scotts #90036) and 75g Marathon pesticide (Crop Production Services) per 3.4L.

LeB4::AtHb1 / Col-0

Relative Expression (log2-ratio):-0.4902029
Number of Samples:3 / 3
Experimental LeB4::AtHb1
Transgenic line (T3 generation of an independent transformant L1-1) carrying the coding region of AtHb1 (At2g16060) under the control of the seed-specific LeB4 promoter and OCS terminator. The line also contains the selectable marker gene BAR conferring resistance to phosphinothrycin. AtHb1 is a non-symbiotic hemoglobin of class-1 with superior affinity for oxygen. LeB4::AtHb1 plants express AtHb1 mainly in seeds and to a certain extent in roots. Under standard growth conditions, transgenic plants are overtly similar to Col-0 wild type, except that their mature seeds are approx. 30% heavier. Under moderate hypoxia (10.5% O2), LeB4::AtHb1 embryos had lower nitric oxide (NO) levels than wild type embryos. Under moderate hypoxia, developing LeB4::AtHb1 seeds had approx. 40% higher respiration rate, higher total ATP level, higher adenylate energy status and showed less changes in metabolite (e.g. T6P, sucrose) levels than wild type seeds. Compared to the wild type, LeB4::AtHb1 seeds had higher H2O2 levels under normal oxygen (21% O2) conditions but under hypoxia H2O2 concentration did not further increase in LeB4::AtHb1 seeds, whereas in wild type it increased (Thiel et al., 2011, BMC Plant Biol. 11: 48).
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).

rga-Δ17 / Ler-EV

Relative Expression (log2-ratio):0.48980713
Number of Samples:3 / 2
Experimental rga-Δ17
Transgenic line (Ler genetic background) carrying a construct that allows dexamethasone (DEX)-inducible expression of rga-Δ17. rga-Δ17 is a mutated form of RGA (REPRESSOR OF ga1-3, At2g01570), a DELLA protein that acts as a repressor of gibberellin (GA) signaling and is degraded in response to GA. rga-Δ17 lacks a DELLA motif and is therefore resistant to GA-induced degradation. The transgenic line constitutively expresses (from the CaMV35S promoter) a chimeric transcription factor GVG consisting of the DNA binding domain of the yeast transcription factor GAL4, the transactivating domain of the herpes viral protein VP16, and the hormone binding domain of the rat glucocorticoid receptor. In the absence of DEX, GVG forms a complex with the 90-kD heat shock protein (HSP90) in the cytoplasm. Upon DEX treatment, the hormone binding domain of GVG binds DEX, GVG thus dissociates from the GVG-HSP90 complex, moves to the nucleus, binds to the GAL4 upstream activating sequence fused to the rga-Δ17 coding sequence, and activates expression of rga-Δ17 (Zentella et al., 2007, Plant Cell 19: 3037-3057).
Control Ler-EV
Transgenic control line L7001-465 (Ler genetic background) that expresses dexamethasone-inducible chimeric transcription factor GVG but does not contain the rga-Δ17 transgene.