Arabidopsis thaliana
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA136003 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:To understand the role of Arabidopsis histone deacetylase HDA6 in plant cold acclimation, we have employed transcriptional profiling of the hda6 mutant and its parental line under cold and control conditions to identify genes differentially expressed in the hda6 mutant under cold and control conditions. Aligent’s Whole Arabidopsis Gene Expression Microarray (G2519F, V4, 4x44K) were used.
2011-01-27 | GSE26873 | GEO
Project description:To understand the role of Arabidopsis histone deacetylase HDA6 in plant cold acclimation, we have employed transcriptional profiling of the hda6 mutant and its parental line under cold and control conditions to identify genes differentially expressed in the hda6 mutant under cold and control conditions. Aligent’s Whole Arabidopsis Gene Expression Microarray (G2519F, V4, 4x44K) were used. Arabidopsis hda6 mutant axe1-5 and its parental line DR5 were grown in MS agar plates for 2 weeks (16 hours light / 8 hours dark). For cold treated sample, the plants were subjected for cold treatment at 2?C for 3 days (12 hours light / 12 hours dark). Then total RNA was prepared and used for the microarray hybridization. Three replicative hybridization experiments for each array were carried out using the independent biological samples.
2011-01-27 | E-GEOD-26873 | biostudies-arrayexpress
Project description:To understand the role of Arabidopsis histone deacetylase HDA6 in drought tolerance, we have employed transcriptional profiling of the hda6 mutant and its parental line under drought and control conditions to identify genes differentially expressed in the hda6 mutant under drought and control conditions. Aligent's Whole Arabidopsis Gene Expression Microarray (Agilent-015059, G2519F, V3, 4x44K) was used.
2017-04-29 | GSE46365 | GEO
Project description:To understand the role of Arabidopsis histone deacetylase HDA6 in drought tolerance, we have employed transcriptional profiling of the hda6 mutant and its parental line under drought and control conditions to identify genes differentially expressed in the hda6 mutant under drought and control conditions. Aligent's Whole Arabidopsis Gene Expression Microarray (Agilent-015059, G2519F, V3, 4x44K) was used. Arabidopsis hda6 mutant axe1-5 and its parental line DR5 were grown in soil for 3 weeks (16 hours light / 8 hours dark). For drought-treated sample, the plants were subjected to drought by withhelding water supply for indicated days. Then total RNA was prepared from the above-ground tissue and used for the microarray hybridization. Three replicative hybridization experiments for each array were carried out using the independent biological samples.
2017-04-29 | E-GEOD-46365 | biostudies-arrayexpress
Project description:Arabidopsis thaliana and Eutrema salsugineum show the ability to cold acclimate. However, the degree of freezing tolerance depends in both cases on the accession. To elucidate the transcriptional basis of this differencial freezing tolerance, we performed where we grew plants under control conditions (20°C/18°C day/night) or under cold conditions (additional 4°C for 2 weeks). Rosettes were harvested from non-acclimated and cold acclimated plants for RNA isolation. Expression patterns were compared between treatments, accessions and species.
2018-01-01 | GSE100108 | GEO
Project description:We applied the tiling arrays to study the Arabidopsis whole-genome transcriptome in Arabidopsis axe1-5 and met1-3 mutants. Fifteen-day-old Arabidopsis plants grown on the agar plates were harvested. The total RNA was prepared from 15-day-old Arabidopsis plants (axe1-5 (hda6 mutant), DR5 (parental line of axe1-5), met1-3 and Col) and used for the microarray hybridization. Three replicative hybridization experiments for each strand array were carried out using the independent biological RNA samples.
2011-05-15 | E-GEOD-23950 | biostudies-arrayexpress
Project description:We report the application of single-molecule-based sequencing technology for high-throughput profiling of HDA6 in 14 days old arabidopsis. By obtaining sequence from chromatin immunoprecipitated DNA, we generated genome-wide HDA6-binding maps of 14 days old arabidopsis. To reveal bound genes by HDA6, chimeric protein HDA6-GFP was expressed under HDA6 promoter in hda6 (HDA6pro:HDA6:GFP/ hda6). ChIP was performed using anti-GFP antibody (ab290; ABCAM), and ChIP DNA were analyzed by Illumina HiSeq 2500.
2021-03-30 | GSE132563 | GEO
Project description:Plants in temperate regions have evolved mechanisms to survive sudden temperature drops. Previous reports have indicated that the cold acclimation mechanism is light-dependent and does not fully operate under a low light intensity. In these studies, plants were grown under a long-day photoperiod and were more sensitive to freezing stress. However, winter annuals like Arabidopsis thaliana Col-0 germinate in the fall, overwinter as rosettes, and therefore must acclimate under short photoperiods and low irradiance. The role of light intensity was analysed in plants grown under a short-day photoperiod at the growth stage 1.14. Plants were acclimated at 4 °C for seven days under 100 and 20 μmol m-2s-1 PPFD for control and limited-light conditions, respectively. All cold acclimated plants accumulated molecular markers reportedly associated with acquired freezing tolerance, including proline, sucrose, CBFs, and COR gene protein products dehydrins and low-temperature-responsive proteins LTIs. Observed changes indicated that low PPFD did not inhibit the cold acclimation process, and the freezing stress experiment confirmed similar survival rates. The molecular analysis found distinct PPFD-specific adaptation mechanisms that were manifested in contrasting content of anthocyanins, cytokinin conjugates, abundances of proteins forming photosystems, and enzymes of protein, energy, and ROS metabolism pathways. Finally, this study led to the identification of putative proteins and metabolite markers correlating with susceptibility to freezing stress of non-acclimated plants grown under low PPFD. Our data show that Arabidopsis plants grown under short-day photoperiod can be fully cold-acclimated under limited light conditions, employing standard and PPFD-specific pathways.
2021-07-08 | PXD025234 | Pride
Project description:Digital gene expression of WT and gi mutant under control and drought conditions in Arabidopsis
| PRJNA211822 | ENA
Project description:Alternative splicing plays a major role in expanding the potential informational content of eukaryotic genomes. It is an important post-transcriptional regulatory mechanism that can increase protein diversity and affect mRNA stability. Cold stress, which adversely affects plants growth and development, regulates the transcription and splicing of plants splicing factors. This affects the pre-mRNA processing of many genes. To identify cold regulated alternative splicing we applied Affymetrix Arabidopsis tiling arrays to survey the transcriptome under cold treatment conditions. Two-week old Arabidopsis seedlings grown on agar were subjected to 24 hours of cold (4°C) treatment under long day conditions. Control and cold-treated plants were harvested at the same time to ensure that observed differences would not be due to circadian clock effects on transcripts. Total RNA from four biological repeats were used for microarray hybridization.
2013-05-12 | E-GEOD-35996 | biostudies-arrayexpress