Ontology highlight
ABSTRACT:
PROVIDER: PRJNA291630 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR2138581.fastq.gz | Fastqsanger.gz | |||
| SRR2154330.fastq.gz | Fastqsanger.gz | |||
| SRR2154360.fastq.gz | Fastqsanger.gz | |||
| SRR2154520.fastq.gz | Fastqsanger.gz | |||
| SRR2154830.fastq.gz | Fastqsanger.gz |
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Project description:ra14-04_nced - abaseed - Identification of abscisic acid (ABA) signaling factors and targets in Arabidopsis developing seeds by comparing ABA deficient and wild type genotypes. Transcriptome comparison of developing seeds harvested at 14 DAP from two ABA-deficient mutants (nced2 nced5 nced9 and nced2 nced5 nced6 nced9) and wild type (Columbia-0).
2015-07-01 | GSE68088 | GEO
Project description:ra12-02_aba-seed - ra12-02_aba-seed - Identification of ABA signaling factors and targets in Arabidopsis developing seeds by comparing ABA deficient and wild type genotypes - Transcriptome comparison of developing seeds harvested at 10 DAP from two ABA-deficient mutants (nced2 nced5 nced9 and nced2 nced5 nced6 nced9) and wild type (Columbia-0)
2019-01-25 | GSE125573 | GEO
Project description:Camelina sativa is an important polyploid oilseed crop with multiple favorable agronomic traits. Capturing the leaf transcriptome of 48 accessions of C. sativa suggests allelic variation for gene expression levels and notably sub-genome dominance, both of which could provide opportunities for crop improvement. Flowering time (FT) is a crucial factor affecting the overall yield of crops. However, our understanding of the molecular mechanisms underlying FT regulation in C. sativa are still limited, partly due to its complex allohexaploid genome. In this study, weighted gene co-expression network analysis (WGCNA), expression quantitative trait loci (eQTL) analysis and transcriptome-wide association study (TWAS) were employed to explore the FT diversity among 48 C. sativa accessions and dissect the underlying molecular basis. Our results revealed a FT-related co-expressed gene module highly enriched with SOC1s and SOC1-like genes, and identified 10 significant FT-associated single nucleotide polymorphisms (SNPs), thus providing a molecular basis for future genetic improvements in C. sativa breeding
2025-03-25 | GSE253393 | GEO
Project description:ra14-04_nced - abaseed - Identification of abscisic acid (ABA) signaling factors and targets in Arabidopsis developing seeds by comparing ABA deficient and wild type genotypes. Transcriptome comparison of developing seeds harvested at 14 DAP from two ABA-deficient mutants (nced2 nced5 nced9 and nced2 nced5 nced6 nced9) and wild type (Columbia-0). 6 dye-swaps - gene knockout, genomic comparison.
2015-07-01 | E-GEOD-68088 | biostudies-arrayexpress
Project description:Assembly and transcriptome analysis of Nigella sativa developing seeds
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Project description:In recent decades, the food system has been faced with the significant problem of increasing food waste. Indeed, as reported by the Food and Agriculture Organisation of the United Nations (FAO), approximately 1.3 billion tonnes of food are lost or wasted globally each year (FAO, 2011). For this reason, the European Union has implemented multiple strategies to ensure the sustainability of the food/feed sector. Among these, the Agenda 2030, later supported by the Green Deal, plays a major role, whose goal is to ensure a competitive, clean and circular economy (Fetting, 2020; Vastolo et al., 2022). For this reason, scientific research is investigating the use of non-edible biomass produced along the food chain as co-products (any product obtained from different agro-industrial processes) for livestock (Pinotti et al., 2020; Rakita et al., 2021). As shown by Govoni et al. (2023), the introduction of co-products (11-16%) to replace energy-rich food crops (such as cereals) would conserve 15.4-27.8 Mha of land, 3-19.6 km3 of blue water and 74.2-137.8 km3 of green water, representing an important strategy to ensure environmental sustainability. To date, although many co-products have already been tested (grape marcs, beet pulp, hempseed cake), several more are attracting the interest of the scientific community (Serena and Knudsen, 2007; Muhlack et al., 2018; Lanzoni et al., 2023a). Among these are camelina (Camelina Sativa L. Crantz) and cardoon (Cynara cardunculus), due to both the low environmental footprint and the high nutritional profile (Turco et al., 2019; Singh et al., 2023). More specifically, camelina and cardoon seeds are characterised by a good protein (25.9±2.07% and 16.7% on DM, respectively) and a high lipid (38.9±1.26% and 25-30% on DM, respectively) content (Genovese et al., 2015; Turco et al., 2019; Singh et al., 2023). As reported by Singh et al. (2023) and Petropoulos et al. (2018), the high fatty acid profile of camelina and cardoon seeds, rich in polyunsaturated fatty acids (55.6% and 65.43±0.08, respectively) and low in saturated fatty acids (9.04% and 13.23±0. 07%, respectively), prompted the food and feed industry to isolate the lipid fraction for nutritional and nutraceutical purposes, creating in parallel waste products. Among them, camelina cake (CAMC), cardoon cake (CC) and cardoon meal (CM) could be used in animal feed due to their high nutritional profile, as reported by Lolli et al. (2020), Nannucci et al. (2021) and Serrapica et al. (2019). However, the characterisation of the antioxidant profile and the study of bioactive peptides are still at an early stage. Therefore, in light of the above, the aim of this work was to investigate the modulation of total phenolic content (TPC) and antioxidant activity during the in vitro digestion process with 2′-azinobis-(3-ethylbenzothiazoline-6-sulphonic acid) (ABTS), ferric reducing antioxidant power (FRAP) and oxygen radical absorbance capacity (ORAC) assays of CAMC, CC, and CM. In parallel, peptidomics analyses of in vitro digested CAMC, CC, and CM have been carried out.
2024-07-03 | PXD049333 | Pride
Project description:This study was performed to investigate the effect of camelina oil-based diets on the immune function of Atlantic cod, as measured by gene expression in spleen. Atlantic cod were fed with one of three practical diets (three tanks per diet): a control diet using herring oil as a lipid source (FO diet), and two experimental diets using vegetable oil from Camelina sativa to replace 40% or 80% of herring oil (40CO and 80CO diets). We studied both the effect of the diet alone on basal spleen gene expression levels, as well as the effect of the diet after fish were injected with the synthetic double-stranded RNA polyriboinosinic polyribocytidylic acid (pIC), which mimics a viral immune stimulus.
2014-12-31 | GSE54358 | GEO
Project description:Comparison of Arabidopsis wild-type developing seeds grown under sulfur-deficient condition vs Arabidopsis wild-type developing seeds grown under control condition.
2007-06-01 | E-ATMX-1 | biostudies-arrayexpress
Project description:Vegetable oils (VO) are possible substitutes for fish oil in aquafeeds but are limited by their lack of omega-3 (n-3) long-chain polyunsaturated fatty acids (LC-PUFA). However, oilseed crops can be modified to produce n-3 LC-PUFA such as eicosapentaenoic (EPA) and docosahexaenoic (DHA) acids, representing a potential option to fill the gap between supply and demand of these important nutrients. Camelina sativa was metabolically engineered to produce a seed oil with around 15 % total n-3 LC-PUFA to potentially substitute for fish oil in salmon feeds. Post-smolt Atlantic salmon (Salmo salar) were fed for 11-weeks with one of three experimental diets containing either fish oil (FO), wild-type Camelina oil (WCO) or transgenic Camelina oil (DCO) as added lipid source to evaluate fish performance, nutrient digestibility, tissue n-3 LC-PUFA, and metabolic impact determined by liver transcriptome analysis. The DCO diet did not affect any of the performance or health parameters studied and enhanced apparent digestibility of EPA and DHA compared to the WCO diet. The level of total n-3 LC-PUFA was higher in all the tissues of DCO-fed fish than in WCO-fed fish with levels in liver similar to those in fish fed FO. Endogenous LC-PUFA biosynthetic activity was observed in fish fed both the Camelina oil diets as indicated by the liver transcriptome and levels of intermediate metabolites such as docosapentaenoic acid, with data suggesting that the dietary combination of EPA and DHA inhibited desaturation and elongation activities. Expression of genes involved in phospholipid and triacylglycerol metabolism followed a similar pattern in fish fed DCO and WCO despite the difference in n-3 LC-PUFA contents.
2016-12-05 | E-MTAB-4621 | biostudies-arrayexpress