Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA93857 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Dark grown Arabidopsis seedlings (Columbia gl1) were grown in the dark at 23°C for 4 days before adding 90 mM sucrose for 6h. Keywords: Response to nutrients; sugar sensing
2005-12-03 | GSE3704 | GEO
Project description:Dark grown Arabidopsis seedlings (Columbia gl1) were grown in the dark at 23°C for 4 days before adding 90 mM sucrose for 6h. Experiment Overall Design: Arabidopsis thaliana ecotype Columbia glabra (gl1-1) was used in this study. Seeds were sterilized with diluted bleach (10 min incubation in 1.7% sodium hypochlorite, rinsing and washing thoroughly in sterile water), and incubated in 2.5 ml liquid growing medium [Murashige-Skoog (MS) half strength solution] in 6-well plates (fully aerobic, with shaking). Plates were incubated in the darkness at 4°C for 2 days and finally transferred to 23°C for 4 days before the sugar treatments (with 90 mM sucrose, lasting 6h). Two independent, replicated experiments were performed for sucrose treatments. Each independent experiment consisted of four replicated seedlings cultures, pooled after RNA extraction. Experiment Overall Design: AIR EXPERIMENT 1: Control without added sucrose Experiment Overall Design: AIR EXPERIMENT 2: Control without added sucrose Experiment Overall Design: Sucrose 90 mM, 6h treatment in the dark, Biological Replicate 1 Experiment Overall Design: Sucrose 90 mM, 6h treatment in the dark, Biological Replicate 2
2008-06-12 | E-GEOD-3704 | biostudies-arrayexpress
Project description:Anoxia induces several heat shock proteins and a heat pre-treatment can acclimatize Arabidopsis seedlings to a subsequent anoxic treatment. In this work we analyzed the response of Arabidopsis seedlings to anoxia, heat and a combined heat+anoxia stress. A significant overlapping between the anoxic and heat shock responses has been observed by whole-genome microarray analysis. Experiment Overall Design: We treated Arabidopsis seedling, 4-days old, dark germinated with: Experiment Overall Design: -Control (23°C, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -Heat-treated (38°C for 90 minutes, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -Anoxia-treated (23°C, under anoxia for 6h, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -combined heat+Anoxia-treatment (23°C, treated at 38°C for 90 min and thereafter under anoxia for 6h, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: Two biological replicates for each condition.
2009-06-08 | E-GEOD-16222 | biostudies-arrayexpress
Project description:A. thaliana seeds of Columbia (Col-0) ecotype were surface-sterilized, plated on designated media and vernalized for 48 hours at 8C. Plants were grown semi-hydroponically under 16-hr-light, 8-hr-dark cycles at a constant temperature of 23C on basal Murashige and Skoog medium supplemented with 2 mM KNO3, 2 mM NH4NO3 and 30 mM sucrose. Two-week-old seedlings were transferred to fresh MS media without nitrogen and sucrose and dark-adapted for 48 hours. To perform specific metabolic treatments manipulating availability of source of carbon (C) and illumination (L): -C-L, +C-L, -C+L, +C+L, two-week-old seedlings were transferred to fresh MS medium containing 0% or 1% sucrose and either placed back into the dark or illuminated with white light for an additional 8 hours. The various treatments were compared to one another using the treatment of -C-L as the background treatment to which all other treatments (-C+L, +C-L, +C+L) were compared.
2004-01-23 | E-MEXP-71 | biostudies-arrayexpress
Project description:Arabidopsis thaliana ecotype Columbia glabra were grown for 4 days in the dark without added sucrose. Samples were subsequently kept for 6h either [1] under aerobic conditions, [2] under anoxia in absence of sucrose or [3] under anoxia in presence of sucrose. Keywords: other
2005-01-10 | GSE2133 | GEO
Project description:Transcriptional profiling of dark-grown Arabidopsis seedlings comparing SCR:PIF1/pifQ transgenic plant with pif1pif3pif4pif5 quadruple mutant (pifQ). Seedlings were grown under dark condition for 2.5 days. Goal was to determine the effects of endodermal PIF1 in dark-grown seedlings.
2016-08-01 | GSE71918 | GEO
Project description:Calcium deficiency response in liverwort, Arabidopsis and lettuce: (1) Marchantia polymorpha: M. polymorpha wildtype and Gβ-null mutant plants (Tak-1, gpb1-2) were grown in control liquid Yamagami media (2 mM Ca) for 6 days. For RNA-seq experiments, 6 day old gemmalings were transferred to calcium deficiency (0 mM Ca) media. Samples were collected at 48 h after the transfer. The transcriptomic profiles were collected from two independent batches. In total four biological replicates were used for each condition and each genotype for a total of 16 samples. (2) Arabidopsis thaliana: For Arabidopsis RNA-seq experiment, 6-day old seedlings grown on ½ strength MS media with sucrose were transferred to Yamagami media with 2 mM or 0 mM CaCl2 and treated for 7 days. (3) Lactuca Sativa: For lettuce RNA-seq, 4-day old seedlings grown on water agar (1%) were transferred to Yamagami media with 2 mM or 0.15 mM CaCl2 and treated for 7 days. In total four and three biological replicates were used for each condition for a total of 8 and 6 samples respectively for Arabidopsis and lettuce.
2023-08-03 | GSE189793 | GEO
Project description:We systematically identified long noncoding natural antisense transcripts (lncNATs), defined as lncRNAs transcribed from the opposite DNA strand of coding or noncoding genes. We identified in total 37,238 sense-antisense transcript pairs and found 70% mRNAs are associated with antisense transcripts in Arabidopsis. To investigate the role of NATs in response to white light treatment, we designed an Agilent custom array, ATH NAT array, and analyzed WT seedlings grown in the dark (0h) and seedlings undergoing de-etiolation in continuous white light for 1h and 6h. To obtain information on organ-specific transcriptome profiles, we further dissected seedlings into cotyledons, hypocotyls and roots.
2013-12-23 | GSE49382 | GEO
Project description:Red light can affect a variety of responses in Arabidopsis. We characterize the early gene expression patterns of seedlings exposed to 1 hour of red light using a small sized sample of 5, 7-day-old seedlings and also performed dark controls. Methods that were developed for tissue extraction and labeling for microarrays were tested using these samples Experiment Overall Design: Only 5, 7 day-old dark-grown Arabidopsis seedlings were treated as described and harvested for RNA extraction and hybridization on Affymetrix microarrays. We pooled samples from one Petri plate with MS medium 2% sucrose. Treatment was 1 hour of red light 630 nm (max) and dark controls
2009-04-18 | E-GEOD-13383 | biostudies-arrayexpress
Project description:An Arabidopsis mutant showing an altered ability to green on illumination after extended periods of darkness has been isolated in a screen for genomes uncoupled (gun) mutants. Following illumination for 24 h, 10-day-old dark-grown mutant seedlings accumulated 5 times more chlorophyll than wild-type seedlings and this was correlated with differences in plastid morphology observed by transmission electron microscopy. The mutant has been named greening after extended darkness 1 (ged1). We used microarrays to detail the global profiles of transcript abundances in the mutant in comparison to the wild type. Microarray analysis showed much lower amounts of transcripts of genes encoding seed storage proteins, oleosins and late embryogenesis abundant (LEA) proteins in 7-day-old seedlings of ged1 compared to wild type. RNA-gel-blot analyses confirmed very low levels of transcripts of seed protein genes in ged1 seedlings grown for 2-10 days in the dark, and showed higher amounts of transcripts of photosynthesis-related genes in illuminated 10-day-old dark-grown ged1 seedlings compared to wild type. Keywords: Genotype
2008-08-12 | GSE12401 | GEO