Ontology highlight
ABSTRACT:
PROVIDER: PRJNA578934 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR10326346_1.fastq.gz | Fastqsanger.gz | |||
| SRR10326346_2.fastq.gz | Fastqsanger.gz | |||
| SRR10326347_1.fastq.gz | Fastqsanger.gz | |||
| SRR10326347_2.fastq.gz | Fastqsanger.gz | |||
| SRR10326348_1.fastq.gz | Fastqsanger.gz |
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Project description:In light of the changes in precipitation and soil water availability expected with climate change, understanding the mechanisms underlying plant responses to water deficit is essential. Toward that end we have conducted an integrative analysis of responses to drought stress in the perennial C4 grass and biofuel crop, Panicum virgatum (switchgrass). Responses to soil drying and re-watering were measured at transcriptional, physiological, and metabolomic levels. To assess the interaction of soil moisture with diel light:dark cycles, we profiled gene expression in drought and control treatments under pre-dawn and mid-day conditions. Soil drying resulted in reduced leaf water potential, gas exchange, and chlorophyll fluorescence along with differential expression of a large fraction of the transcriptome (37%). Many transcripts responded differently depending on time of day (e.g. up-regulation pre-dawn and down-regulation mid-day). Genes associated with C4 photosynthesis were down-regulated during drought, while C4 metabolic intermediates accumulated. Rapid changes in gene expression were observed during recovery from drought, along with increased water use efficiency and chlorophyll fluorescence. Our findings demonstrate that drought responsive gene expression depends strongly on time of day and that gene expression is extensively modified during the first few hours of drought recovery. Analysis of covariation in gene expression, metabolite abundance, and physiology among plants revealed non-linear relationships that suggest critical thresholds in drought stress responses. Future studies may benefit from evaluating these thresholds among diverse accessions of switchgrass and other C4 grasses. mRNA profiles of leaf tissue from clonal replicates at various time points during drydown and recovery were generated by deep sequencing 3' mRNA tags using SOLiD.
2014-07-01 | E-GEOD-57887 | biostudies-arrayexpress
Project description:In light of the changes in precipitation and soil water availability expected with climate change, understanding the mechanisms underlying plant responses to water deficit is essential. Toward that end we have conducted an integrative analysis of responses to drought stress in the perennial C4 grass and biofuel crop, Panicum virgatum (switchgrass). Responses to soil drying and re-watering were measured at transcriptional, physiological, and metabolomic levels. To assess the interaction of soil moisture with diel light:dark cycles, we profiled gene expression in drought and control treatments under pre-dawn and mid-day conditions. Soil drying resulted in reduced leaf water potential, gas exchange, and chlorophyll fluorescence along with differential expression of a large fraction of the transcriptome (37%). Many transcripts responded differently depending on time of day (e.g. up-regulation pre-dawn and down-regulation mid-day). Genes associated with C4 photosynthesis were down-regulated during drought, while C4 metabolic intermediates accumulated. Rapid changes in gene expression were observed during recovery from drought, along with increased water use efficiency and chlorophyll fluorescence. Our findings demonstrate that drought responsive gene expression depends strongly on time of day and that gene expression is extensively modified during the first few hours of drought recovery. Analysis of covariation in gene expression, metabolite abundance, and physiology among plants revealed non-linear relationships that suggest critical thresholds in drought stress responses. Future studies may benefit from evaluating these thresholds among diverse accessions of switchgrass and other C4 grasses.
2014-07-01 | GSE57887 | GEO
Project description:This study explored the transcriptomic response of couch grass rhizome meristhematic region exposed to mild, medium and severe drought. The couch grass stress response was compared with the response of two contrasting barley cultivars and the specificities and commonalities in transcriptomic stress response of both species were identified.
2018-04-12 | GSE112428 | GEO
Project description:Drought represents a significant stress to microorganisms and is known to reduce microbial activity and organic matter decomposition in Mediterranean ecosystems. However, we lack a detailed understanding of the drought stress response of microbial decomposers. Here we present metatranscriptomic data on the physiological response of in situ microbial communities on plant litter to long-term drought in Californian grass and shrub ecosystems.
2020-05-01 | GSE148618 | GEO
Project description:Soybean is a nutritionally important crop that exhibits reductions in growth and yields under drought stress. To investigate soybean responses during post-drought recovery, a gel-free proteomic technique was used to examine the protein profile. Two-day-old soybeans were stressed with drought for 4 days, recovered for 4 days, and root including hypocotyl was collected under drought and during the recovery stage. Morphological analysis revealed that growth was suppressed under drought stress that recovered following stress removal. Malondialdehyde content was increased under drought stress but returned to normal during the recovery stage. A total of 792 and 888 proteins were identified in control and drought-stressed root including hypocotyl during recovery stage, respectively. Based on the proteomic and cluster analyses, peroxidase and aldehyde dehydrogenase were significantly changed at analyzed time points under drought stress and during recovery. The activity of peroxidase was decreased under drought stress but increased during recovery. The activity of aldehyde dehydrogenase was increased under drought stress but returned to normal during the recovery stage. These results suggest that peroxidase and aldehyde dehydrogenase play key role in post-drought recovery in soybean by scavenging toxic reactive oxygen species and reducing harmful aldehydes load.
2016-06-16 | PXD003650 | Pride
Project description:All organisms experience stress as an inevitable part of life, from single-celled microorganisms to complex multicellular beings. The ability to recover from stress is a fundamental trait that determines the overall resilience of an organism, yet stress recovery is understudied. To understand the stress recovery process, we studied the recovery from drought stress in Arabidopsis thaliana. We performed a fine-scale time series of bulk RNA sequencing starting 15 minutes after rehydration following moderate drought. We reveal that drought recovery is a rapid process involving the activation of thousands of recovery-specific genes. To capture these rapid recovery responses in different leaf cell types, we performed single-nucleus transcriptome analysis at the onset of post-drought recovery, identifying a cell type-specific transcriptional state developing independently across cell types. Furthermore, we reveal a recovery-induced activation of the immune system that occurs autonomously, and which enhances pathogen resistance in vivo in A. thaliana, wild tomato (Solanum pennellii) and domesticated tomato (Solanum lycopersicum cv. M82). Since rehydration promotes microbial proliferation and thereby increases the risk of infection, the activation of drought recovery-induced immunity may be crucial for plant survival in natural environments. These findings indicate that drought recovery coincides with a preventive defense response, unraveling the complex regulatory mechanisms that facilitate stress recovery in different plant cell types.
2025-07-23 | GSE289042 | GEO
Project description:The urgent need to address water scarcity underscores the importance of enhancing plant drought resistance. This study investigates whether pretreatment with abscisic acid (ABA) activates early stress signaling, thereby improving barley drought response when subsequently exposed to drought conditions. Although the individual responses to drought and ABA are well-documented, their synergistic effects in barley warrant further investigation. This study examines the impact of ABA on barley drought resilience through an experimental design that incorporates four distinct treatments: optimal watering, ABA application at 60 days post-sowing, and two drought stress treatments - one with and the other without prior ABA application. Key physiological parameters, such as photosynthesis, stomatal conductance and chlorophyll content, were analyzed in conjunction with transcriptomics. The results suggest that ABA pretreatment initiates early stomatal closure and elevates the expression of essential genes like NCED1, BG8, and HvA22, priming barley for improved drought resistance. During the drought, ABA-pre-treated barley maintained high chlorophyll levels, indicating sustained photosynthetic activity, a trend that persisted across treatments during the post-drought recovery phase. Furthermore, ABA pre-treatment was found to preserve photosystem II efficiency during drought conditions. Transcriptomic analyses revealed distinct gene expression profiles, alternative splicing profile and isoform switching, highlighting the molecular complexities of ABA role in drought response. These alterations span stress response, metabolic pathways, and DNA modification processes, providing a comprehensive view of ABA treatment's regulatory and metabolic impacts. In conclusion, ABA pretreatment strengthens barley drought defense by fostering stomatal closure and gene activation, guiding research strategies grounded in ABA and suggesting that genotypes with elevated ABA levels could have enhanced resilience and recovery capabilities.
2024-12-31 | E-MTAB-14333 | biostudies-arrayexpress
Project description:Jatropha is known for its ability to grow in marginal lands and drought prone areas receiving limited amounts of rainfall. Accordingly, gene discovery in Jatropha will be useful for providing a source of genetic information for the improvement of drought tolerance in crops. In this study, a Jatropha oligomicroarray was developed to evaluate the gene expression profile of Jatropha plants during drought stress response and recovery from stress. When the gene expression patterns were compared between those differentially expressed during exposure to drought stress and re-watering, it was possible to identify 333 genes that are involved in the response to dehydration, while 592 genes were found to be significant during recovery, and 375 genes are associated in both dehydration and recovery. Furthermore, representative genes from the three gene categories were compared to those found in other plant species and a basic understanding on how Jatropha copes with drought and its mechanism for survival in dry conditions is discussed. Taken together, the oligomicroarray that we developed in this study is a useful tool for analyzing expression profiles of Jatropha genes to better understand molecular mechanism underlying drought stress responses as well as other aspects of molecular studies in Jatropha.
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Project description:Transcriptomics study which main goal is to elucidate the programme of gene expression triggered by water stress in leaflets of the drought-tolerant wild-related tomato Solanum pennellii (acc. PE47) compared with domesticated tomato (S. lycopersicum, cv. P73). In this study we used S. lycopersicum (Sl) (cv. P73) and S. pennellii (Sp) (acc. PE47) species displaying remarkable divergences regarding drought tolerance, to investigate the physiological and molecular responses in leaves of plants grown without stress (control) and after four days of water withholding (water stress, WS), when plant water loss was significant but leaves did not show visual dehydration symptoms yet. Significant physiological differences between species were found, showing Sp leaves higher ability to avoid water loss. Leaf transcriptomic analysis showed important constitutive expression differences between Sp and Sl, including genes with unknown function. In relation to the genes specifically induced by drought in Sp, those linked to stomatal closure, cell wall and primary carbohydrate metabolism and, specially, nitrogen metabolism were identified. Thus, genes linked to NH4+ assimilation, GOGAT/GS cycle and the GDH- and GABA-shunt were specifically induced by water stress in leaves of Sp. Our results showed also the up-regulation in Sp of genes involved in JA biosynthesis pathway, which were induced in both conditions, whereas genes involved in ET biosynthesis were specifically induced under WS. Regarding ET signaling, ERF genes were up-regulated by WS in Sp, hinting at the importance of these transcriptional regulators in the drought response of Sp.
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