Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1255843 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR33323598.fastq.gz | Fastqsanger.gz | |||
| SRR33323599.fastq.gz | Fastqsanger.gz |
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Project description:We determined the RNA sequence of V. vinifera cv. Victoria and V. vinifera cv. Muscat Hamburg grapes to reveal the transcriptomics variations between summer and winter berries under a double cropping system. Transcriptomics analysis showed that the upregulated VviDXSs, VviPSYs, and VviCCDs expressions might contribute to accumulations of terpenes or norisoprenoids in winter berries.
2021-03-13 | GSE168785 | GEO
Project description:Grape berries undergo considerable physical and biochemical changes during the ripening process. Ripening is characterized by a number of changes, including the degradation of chlorophyll, an increase in berry deformability, a rapid increase in the level of hexoses in the berry vacuole, an increase in berry volume, the catabolism of organic acids, the development of skin colour, and the formation of compounds that influence flavour, aroma, and therefore, wine quality. The aim of this work is to identify differentially expressed genes during grape ripening by microarray and real-time PCR techniques. Using a custom array of new generation, we analysed the expression of 6000 grape genes from pre-veraison to full maturity, in Vitis vinifera cultivar Muscat of Hamburg, in two different years (2006 and 2007). Five time points per year and two biological replicates per stadium were considered. To reduced intra-plant and inter-plant biological variability, for each ripening stadium we collected around hundred berries from several bunch grapes of five plants of V. vinifera cv Muscat of Hamburg. We will use the real-time PCR technique to validate microarray data.Muscat of Hamburg. We will use the real-time PCR technique to validate microarray data.
2010-11-09 | E-MEXP-2451 | biostudies-arrayexpress
Project description:Monoterpenes are typical aroma components of muscat grape cultivars. However, the molecular mechanism of monoterpene biosynthesis between muscat and non-muscat grape remains unclear. In this study, two F1 hybrids with different aroma profiles from the cross between 'Midknight Beauty' and 'Red Globe' grapes were chosen for comprehensive transcriptome and metabolome analysis to study the unique monoterpenoid accumulation pattern and related candidate genes. The results showed that in the hybrid progeny, the concentrations of most terpenoids differed at different times, and the concentration of most terpenoids increased from the pre-veraison to veraison, followed by a decreasing trend from veraison to maturity. In the F1 generation, the concentration of monoterpenes accumulated in Muscat grapes was significantly higher than that in Neutral grapes. Furthermore, linalool，α-terpineol, and L-α-terpineol may be important odorants that affect the floral characteristics of Muscat grapes because of their high odor activity values (OAVs). Transcriptional analysis identified 3 VvDXS (LOC100249323, LOC100268079, LOC100247834), 1 VvHDS (LOC100257071), 1 VvMVK (LOC100251148), 1 VvHMGR (LOC100265082), and 1 VvGGPPS (LOC100257234) in the MEP and MVA pathways. Meanwhile, 11 TPS genes that may be involved in the regulation of monoterpenes were identified. Among them, VvTPS (LOC100853562) showed consistency with the accumulation of monoterpenes and had a high expression level， MYB (LOC100255488), GATA (LOC100262474), and ERF (LOC100255943, LOC100260401) were selected as candidate transcription factors (TFs). The findings provide new insights for the subsequent functional validation and further investigation of genes related to monoterpene synthesis in Muscat aroma grapes.
2024-07-01 | GSE265850 | GEO
Project description:Table grapes cv. Cardinal are highly perishable and their quality deteriorates during postharvest storage at low temperature mainly because of sensitivity to fungal decay and senescence of rachis. The application of a 3-day CO2 treatment with 20 kPa CO2 at 0C reduced total decay and retained fruit quality in early and late-harvested table grapes during postharvest storage. In order to study the transcriptional responsiveness of table grapes to low temperature and high CO2 levels in the first stage of storage and how the maturity stage affect these changes, we have performed a comparative large-scale transcriptional analysis. In the first stage of storage, low temperature led to a significantly intense change in grape skin transcriptome irrespective of fruit maturity, although there were different changes within each stage. In the case of CO2 treated samples, in comparison to fruit at time zero, only slight differences were observed. Functional enrichment analysis revealed that major modifications in the transcriptome profile of early- and late-harvested grapes stored at 0C are linked to biotic and abiotic stress-responsive terms. However, in both cases there is a specific reprogramming of the transcriptome during the first stage of storage at 0C in order to withstand the cold stress. Thus, genes involved in gluconeogenesis, photosynthesis, mRNA translation and lipid transport were up-regulated in the case of early-harvested grapes, and genes related to protein folding stability and intracellular membrane trafficking in late-harvested grapes. The beneficial effect of high CO2 treatment maintaining table grape quality seems to be an active process requiring the induction of several transcription factors and kinases in early-harvested grapes, and the activation of processes associated to the maintenance of energy in late-harvested grapes. Table grapes harvested at two maturity stages (early and late). 3 biological replicates. Early-harvested (MI:12.45) : Time zero, 3 days air 0C, 3 days high CO2 levels 0C. Late-harvested (MI: 41.08): Time zero, 3 days air 0C, 3 days high CO2 levels 0C.
2016-09-04 | E-GEOD-83275 | biostudies-arrayexpress
Project description:Two small RNA libraries were generated from micropropagated ‘Muscat Hamburg’ (Vitis vinifera) plantlets under normal and low temperatures (4 °C). A total of 163 known miRNAs and 299 putative novel miRNAs were detected from two small RNA libraries by Solexa sequencing. Forty-four cold-inducible miRNAs were identified through differentially expressed miRNAs (DEMs) analysis; among which, 13 belonged to upregulated DEMs while 31 belonged downregulated DEMs. This study indicated that a diverse set of miRNAs in V. vinifera are cold-inducible and may play an important role in cold stress response.
2016-06-14 | GSE68970 | GEO
Project description:Table grapes cv. Cardinal are highly perishable and their quality deteriorates during postharvest storage at low temperature mainly because of sensitivity to fungal decay and senescence of rachis. The application of a 3-day CO2 treatment with 20 kPa CO2 at 0C reduced total decay and retained fruit quality in early and late-harvested table grapes during postharvest storage. In order to study the transcriptional responsiveness of table grapes to low temperature and high CO2 levels in the first stage of storage and how the maturity stage affect these changes, we have performed a comparative large-scale transcriptional analysis. In the first stage of storage, low temperature led to a significantly intense change in grape skin transcriptome irrespective of fruit maturity, although there were different changes within each stage. In the case of CO2 treated samples, in comparison to fruit at time zero, only slight differences were observed. Functional enrichment analysis revealed that major modifications in the transcriptome profile of early- and late-harvested grapes stored at 0C are linked to biotic and abiotic stress-responsive terms. However, in both cases there is a specific reprogramming of the transcriptome during the first stage of storage at 0C in order to withstand the cold stress. Thus, genes involved in gluconeogenesis, photosynthesis, mRNA translation and lipid transport were up-regulated in the case of early-harvested grapes, and genes related to protein folding stability and intracellular membrane trafficking in late-harvested grapes. The beneficial effect of high CO2 treatment maintaining table grape quality seems to be an active process requiring the induction of several transcription factors and kinases in early-harvested grapes, and the activation of processes associated to the maintenance of energy in late-harvested grapes.
2016-09-04 | GSE83275 | GEO
Project description:To obtain an interpretation from the view of transcriptome on distinct metabolite accumulation between ecologically different regions in China, next-generation sequencing technology was performed on E-L 31, 35?36 and 38 stages of Muscat Blanc a Petits Grains grape berries from Changli (CL, eastern) and Gaotai (GT, western). Transcriptome analysis revealed that some key genes involved in terpene synthesis were markedly up-regulated in the CL region. Particularly in the MEP pathway, the expression of VvHDR (1-hydroxy-2-methyl-2-butenyl 4-diphosphate reductase) paralleled with the accumulation of terpenes, which can promote the flow of isopentenyl diphosphate (IPP) into the terpene synthetic pathway. The glycosidically bound monoterpenes accumulated differentially along with maturation in both regions, which is synchronous with the expression of a monoterpene glucosyltransferase gene (VvGT14). Other genes were also found to be related to the differential accumulation of terpenes and monoterpene glycosides in the grapes between regions. Transcription factors that could regulate terpene synthesis were predicted through gene co-expression network analysis. Additionally, the genes involved in abscisic acid (ABA) and ethylene signal responses were expressed at high levels earlier in GT grapes than in CL grapes. cDNA libraries generated from four developmental stages (E-L 31, 35, 36 and 38) of Muscat Blanc a Petits Grains grape berries in two consecutive years from Changli (CL) and Gaotai (GT) in China were sequenced using Illumina HiSeq™ 2000.Only one RNA-seq library was constructed for each of the E-L31 and E-L36 stage samples because of the small amount of high quality RNA acquired, whereas two libraries were constructed for each of the E-L35 and E-L38 stage samples. As a result, a total of 24 libraries were obtained for the two regions within two years.
2015-07-22 | E-GEOD-71146 | biostudies-arrayexpress
Project description:Sulphur is used as a food preservative, especially throughout the table grape and wine industries, <br>however there is increasing concern as to the health rises associated with human consumption. <br>Thus, we investigated the transcript abundance changes in grapes treated with sulfur dioxide and <br>other preservative compounds, compared to control treatments. Export quality, red-skinned M-^QCrimson<br> SeedlessM-^R grapes (Vitis vinifera L.) were harvested at commercial maturity from one vineyard <br>in the Swan Valley region of Western Australia. At least 15 kg grapes per treatment were <br>completely immersed in the treatment solution (? 1 min) and allowed to dry on racks before <br>being weighed in to 7 x 2 kg lined export cartons, without sulphur pads. Once packed, cartons <br>were immediately placed in 2 M-0C storage for up to 56 days and once cool, commercial <br>SO2-generating pads were placed into cartons for SO2 treatment. The salicylic acid (SA,<br> 25 mM), methyl jasmonate (MJ, 5mM) and their combination (25 mM SA + 5 mM MJ) were <br>dissolved in 0.5 % (v/v) dimethyl sulphoxide (DMSO). A 0.5 % solution of DMSO was used<br> as a control treatment. An additional, untreated control for sulphur-treated berries was used.<br>Microarrays were performed in duplicate for the 6 treatments, Sulfur dioxide (plus untreated <br>control), SA, MJ, and the combined SAMJ treatment (plus DMSO control) on grape berries <br>after 21 days of treatment post harvest. The results indcate a large scale re-programing of <br>the grape berry transcritpome, similar to that which has been observed for prolonged <br>exposure to harsh oxidative stress conditions.
2011-03-29 | E-MEXP-3045 | biostudies-arrayexpress