TOP TEN perturbations for Q9FIB0 (Arabidopsis thaliana)

Organism: Arabidopsis thaliana
Gene: Q9FIB0
Selected probe(set): 250509_at
Platform: Affymetrix Arabidopsis ATH1 Genome Array

Expression of Q9FIB0 (250509_at) across 3240 perturbations tested by GENEVESTIGATOR:

germination (48h) / stratification (48h)

Relative Expression (log2-ratio):-4.9177446
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 stratification (48h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, then sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), and stratified at 4°C in darkness for 48h.

germination (12h) / stratification (48h)

Relative Expression (log2-ratio):-4.412117
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 stratification (48h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, then sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), and stratified at 4°C in darkness for 48h.

germination (24h) / stratification (48h)

Relative Expression (log2-ratio):-4.1378403
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 stratification (48h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, then sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), and stratified at 4°C in darkness for 48h.

nph4-1 arf19-1 / Col-0

Relative Expression (log2-ratio):-4.1127005
Number of Samples:3 / 3
Experimental nph4-1 arf19-1
Double mutant carrying: 1) fast neutron-generated rearrangement (an inversion with an internal deletion) that breaks the coding sequence of ARF7 between exons 11 and 12; 2) T-DNA insertion in the 9th exon of ARF19. The double mutant was generated by crossing nph4-1 (one of the arf7 allelic mutants) and arf19-1 (one of the arf19 allelic mutants isolated by Okushima et al. from the SALK collection of Arabidopsis T-DNA insertional mutants (Alonso et al., 2003, Science 301: 653-657)). ARF7 (Auxin Response Factor 7, At5g20730) and ARF19 (Auxin Response Factor 19, At1g19220) are closely related transcriptional regulators from the ARF family. ARF7 and ARF19 are involved in auxin signaling, e.g. auxin-regulated lateral root formation. Under standard growth conditions on soil, inflorescence stems of nph4-1 arf19-1 plants are thin and short, rosette leaves are small and epinastic. Ten-day-old nph4-1 arf19-1 seedlings do not have any lateral roots whereas 10-day-old Col wild type has approx. 7 lateral roots per seedling. nph4-1 arf19-1 starts to produce lateral roots later (after 2 weeks of growth). The gravitropic response is impaired in nph4-1 arf19-1 roots and hypocotyls. The phototropic response toward blue light is impaired in nph4-1 arf19-1 hypocotyls. Length of nph4-1 arf19-1 roots and hypocotyls is less reduced by exogenously applied auxin than length of wild type roots and hypocotyls. When 4-day-old seedlings are placed on medium containing auxin (1µM indole-3-acetic acid) the wild type produces many lateral roots whereas nph4-1 arf19-1 produces only a few lateral roots with a delay of approx. 2 days (Harper et al., 2000, Plant Cell 12: 757-770; Okushima et al., 2005, Plant Cell 17: 444-463).
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).

nph4-1 / Col-0

Relative Expression (log2-ratio):-4.0737963
Number of Samples:2 / 3
Experimental nph4-1
One of the arf7 allelic mutants carrying a fast neutron-generated rearrangement (an inversion with an internal deletion) that breaks the coding sequence of ARF7 between exons 11 and 12. ARF7 (Auxin Response Factor 7, At5g20730), a member of the ARF family, is a transcriptional regulator involved in auxin signaling. Ten-day-old nph4-1 seedlings have less lateral roots than 10-day-old Col wild type seedlings. nph4-1 has epinastic rosette leaves, its inflorescence stem is slightly shorter than that of the wild type. The phototropic response toward blue light is impaired in nph4-1 hypocotyls. Length of nph4-1 hypocotyls is less reduced by exogenously applied auxin than length of wild type hypocotyls (Okushima et al., 2005, Plant Cell 17: 444-463).
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).

IAA study 2 / solvent treated seedlings

Relative Expression (log2-ratio):3.3252516
Number of Samples:3 / 2
Experimental IAA study 2
After 7 days culture period, seedlings were treated with 5 µM IAA for 2 h at 24°C.
Control solvent treated seedlings
After 7 days culture period, seedlings were treated with 5 µM EtOH for 2 h at 24°C.

germination (48h) / seed desiccation

Relative Expression (log2-ratio):-3.2571688
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.

IAA study 5 (hy5hyh) / mock treated seedlings (hy5hyh)

Relative Expression (log2-ratio):3.0379677
Number of Samples:2 / 2
Experimental IAA study 5 (hy5hyh)
3 days old hy5hyh double mutant seedling samples, treated with 10μM IAA 5h after light induction for 1h.
Control mock treated seedlings (hy5hyh)
3 days old etiolated hy5hyh double mutant seedling samples, mock-treated 5h after light induction for 1h.

IAA study 5 (hyh) / mock treated seedlings (hyh)

Relative Expression (log2-ratio):2.8874779
Number of Samples:2 / 2
Experimental IAA study 5 (hyh)
3 days old hyh mutant seedling samples, treated with 10μM IAA 5h after light induction for 1h.
Control mock treated seedlings (hyh)
3 days old etiolated hyh mutant seedling samples, mock-treated 5h after light induction for 1h.

germination (6h) / stratification (48h)

Relative Expression (log2-ratio):-2.7972298
Number of Samples:3 / 3
Experimental germination (6h)
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 6h.
Control stratification (48h)
Col-0 seeds were harvested, allowed to dessicate for 15 days in darkness, then sterilized, plated on Murashige and Skoog medium (containing 3% sucrose), and stratified at 4°C in darkness for 48h.