Time of day determines Arabidopsis transcriptome and growth dynamics under mild drought
Ontology highlight
ABSTRACT:
PROVIDER: PRJEB10930 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| ERR1025330.fastq.gz | Fastqsanger.gz | |||
| ERR1025340.fastq.gz | Fastqsanger.gz | |||
| ERR1025331.fastq.gz | Fastqsanger.gz | |||
| ERR1025341.fastq.gz | Fastqsanger.gz | |||
| ERR1025332.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 21 |
Similar Datasets
Project description:RNA sequencing on the third true Arabidopsis leaves of plants exposed to mild drought stress from 12 days after stratification onwards. Samples were harvested at 4AM, 12PM and 8PM on day 14, and at 4AM on day 15.
2017-07-03 | E-MTAB-3908 | biostudies-arrayexpress
Project description:The data present global gene expression profiling of roots of two barley genotypes with contrasting ability to cope with drought stress. We used the whole root system and the second leaf of CamB and Maresi genotypes subjected to 10-days of mild drought at seedling stage. The transcriptomes of leaves served in the presented study as a background to depict, which genes may respond with the expression changes in an organ-specific manner. Our data indicate that the mild drought resulted in more changes in the transcriptomes of roots than in the leaves and more differentially expressed genes (DEGs) were root-specific. We also found that similar number of DEGs were induced or repressed by the stress in roots of CamB genotype, whereas in roots of more drought susceptible Maresi a down-regulation of gene expression prevailed. We identified 88 genes encoding transcription factors and gene expression regulators that were differentially expressed in roots and the majority of them were root-specific. We discuss their probable function in drought response and tolerance and predicted a possible regulatory network downstream of selected transcription factors.
2019-03-09 | GSE128048 | GEO
Project description:Transcriptomics of mild drought response in barley
| PRJNA526199 | ENA
Project description:Under natural conditions, plants experience episodes of drought for periods of days or longer. Plants respond to drought stress by reconfiguring their transcriptome activity. Transcriptome changes in response to drought are dynamic, and are likely to be shaped by mitigating factors such as diel signals. To gain insights into the dynamics of transcriptome reconfiguration in response to gradual soil drying, the drought-induced transcriptomes of Arabidopsis thaliana were examined at four time points over a single diel period – midday, late day, midnight, and pre-dawn. A core set of genes was identified that was responsive to drought, independent of the time of day at which they were measured. Strikingly, the magnitude of the drought-induced changes for these genes varied in a time-of-day-dependent manner. An additional set of time-of-day-specific drought-responsive genes were also identified. The diurnal patterns of transcript accumulation for these genes was strongly influenced by drought stress. This study indicates that analysis of a single time point would miss suites of drought-responsive genes that are revealed through assessment of the dynamics of diurnal changes, emphasizing the value of characterizing multiple time-of-day-specific drought transcriptomes.
2010-07-01 | GSE19700 | GEO
Project description:Episodic drought stress negatively impacts the health of long-lived trees. Understanding the genetic and molecular mechanisms that underpin response to drought stress is requisite for selecting or enhancing climate change resilience. Here we aim to establish standardized drought stress protocols for transcriptome studies in poplar trees, to determine how hybrid poplars respond to prolonged and uniform exposure to drought; to determine if the responses to moderate and more severe growth-limiting drought stresses were qualitatively or quantitatively different; and, to determine how response to drought changes throughout the day. We established hybrid poplar trees (Populus x ’Okanese’) from unrooted stem cutting with abundant soil moisture for six weeks. We then withheld water to establish three soil water contents reflecting well-watered, moderate, and severe growth-limiting drought conditions. Plants were rewatered as needed for three weeks to maintain the soil water conditions. The mild and severe drought treatments elicited distinct changes in growth and development, photosynthetic rates and global transcriptomic changes. Notably, the time of day of sampling was strongest signal in the transcriptome data and it quantitatively and qualitatively affected drought responsive changes in gene expression. These analyses emphasize the complex nature of drought regulation in long-lived trees.
2021-12-20 | GSE191155 | GEO
Project description:RNA-seq data of Arabidopsis thaliana accessions exposed to mild drought or control treatments. The sampled tissue is the third leaf at the last day of proliferation (cell division phase).
2016-09-26 | E-MTAB-5009 | biostudies-arrayexpress
Project description:RNA sequencing on the third true leaves of two Arabidopsis natural accessions (ICE163 and Yeg-1) exposed to mild drought stress which was initiated from 6 days after stratification onwards. Samples were harvested at 6 PM on day 11.
2021-04-24 | E-MTAB-10374 | biostudies-arrayexpress
Project description:As exposure to episodic drought can impinge significantly on forest health and the establishment of productive tree plantations, there is great interest in understanding the mechanisms of drought response in trees. The ecologically dominant and economically important genus Populus, with its sequenced genome, provides an ideal opportunity to examine transcriptome level changes in trees in response to a drought stimulus. The transcriptome level drought response of two commercially important hybrid Populus clones (P. deltoides · P. nigra, DN34, and P. nigra · P. maximowiczii, NM6) was characterized over a diurnal period using a 4 · 2 · 2 completely randomized factorial ANOVA experimental design (four time points, two genotypes, and two treatment conditions) using Affymetrix Poplar GeneChip microarrays. Notably, the specific genes that exhibited changes in transcript abundance in response to drought differed between the genotypes and/or the time of day that they exhibited their greatest differences. This study emphasizes the fact that it is not possible to draw simple, generalized conclusions about the drought response of the genus Populus on the basis of one species, nor on the basis of results collected at a single time point. The data derived from our studies provide insights into the variety of genetic mechanisms underpinning the Populus drought response, and provide candidates for future experiments aimed at understanding this response across this economically and ecologically important genus.
2009-12-31 | GSE15242 | GEO
Project description:Under natural conditions, plants experience episodes of drought for periods of days or longer. Plants respond to drought stress by reconfiguring their transcriptome activity. Transcriptome changes in response to drought are dynamic, and are likely to be shaped by mitigating factors such as diel signals. To gain insights into the dynamics of transcriptome reconfiguration in response to gradual soil drying, the drought-induced transcriptomes of Arabidopsis thaliana were examined at four time points over a single diel period â midday, late day, midnight, and pre-dawn. A core set of genes was identified that was responsive to drought, independent of the time of day at which they were measured. Strikingly, the magnitude of the drought-induced changes for these genes varied in a time-of-day-dependent manner. An additional set of time-of-day-specific drought-responsive genes were also identified. The diurnal patterns of transcript accumulation for these genes was strongly influenced by drought stress. This study indicates that analysis of a single time point would miss suites of drought-responsive genes that are revealed through assessment of the dynamics of diurnal changes, emphasizing the value of characterizing multiple time-of-day-specific drought transcriptomes. 24 arrays total. 4 time points (midday, late day, midnight, pre-dawn). 2 water regimes (well-watered, water-limited). 3 biological replicates per treatment.
2010-07-30 | E-GEOD-19700 | biostudies-arrayexpress
Project description:Transcriptome analysis on young developing leaves of 6 Arabidopsis thaliana accessions (An1, Blh1, Col0, Cvi0, Oy0, Sha) subjected to control and mild drought conditions.
2015-02-28 | E-MTAB-3279 | biostudies-arrayexpress