Ontology highlight
ABSTRACT:
PROVIDER: PRJNA947261 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR23959349_1.fastq.gz | Fastqsanger.gz | |||
| SRR23959349_2.fastq.gz | Fastqsanger.gz | |||
| SRR23959350_1.fastq.gz | Fastqsanger.gz | |||
| SRR23959350_2.fastq.gz | Fastqsanger.gz | |||
| SRR23959351_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 18 |
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Project description:RNA-seq of Prunus persica roots and leaves under drought stress
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Project description:We report here the RNAseq data generated from a drought experiment using tomato leaves (Solanum lycopersicum), in which three timepoints and two treatments were collected. More specifically, RNAseq was generated from tomato plants prior to drought (T0), during a period of drought (T1) and after a period of recovery from drought (T2). At timepoints 1 and 2 (T1 & T2), a control set of plants that were continuously watered are also included. Furthermore, at each timepoint, each leaf was dissected into two parts, including the vein and intervein. The samples are therefore named as Tissue/Timepoint/Treatment, and include VT0W (vein, T0, watered), VT1W (vein, T1, watered), VT1D (vein, T1, drought), VT2D, VT2W and IVT0W (intervein, T0, Watered), IVT1D, IVT1W, IVT2D, IVT2W. Note that VT2D and IVT2D, while named "drought", were actually recovered from drought.
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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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Project description:Drought stress imposes severe challenges on agriculture by impacting crop performance. Understanding drought responses in plants at a cellular level is a crucial first step towards engineering improved drought resilience. The molecular responses to drought are however very complex as they depend on multiple factors including the severity of drought, the profiled organ, its developmental stage and even the cell types therein. As such, deciphering the transcriptional responses to drought is specifically challenging.In the study associated with this data submission, we investigated tissue-specific responses to mild drought in young Arabidopsis thaliana (Arabidopsis) leaves using single-cell RNA sequencing (scRNA-seq, deposited under another id, GSE273033). To preserve transcriptional integrity during cell isolation, we fixed the RNA prior to cell isolation using the transcription inhibitor actinomycin D, demonstrating the benefits of fixation for studying mild stress responses at single-cell level. The transcriptome data deposited here corresponds to the bulk RNA-sequencing experiments described in this study. The samples presented here are undigested leaves, leaves digested by cell wall degradation without fixation, and leaves digested by cell wall degradation with RNA fixation. All sample types were collected from plants growing under well-watered and mild drought conditions.
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