Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR20074206.fastq.gz | Fastqsanger.gz | |||
| SRR20074207.fastq.gz | Fastqsanger.gz | |||
| SRR20074208.fastq.gz | Fastqsanger.gz | |||
| SRR20074209.fastq.gz | Fastqsanger.gz | |||
| SRR20074210.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Purpose:The red coloration of apple (Malus × domestica Borkh.) is due to the accumulation of anthocyanins in the fruit peel. Light is essential for anthocyanin biosynthesis in apple.Apple peel can quickly turn red under light conditions after unbagging. Therefore, the implementation of transcriptome sequencing to find genes that promote anthocyanin accumulation in response to light signals is necessary to clarify the mechanism of light-induced anthocyanin accumulation in apple peel.
2021-10-02 | GSE185089 | GEO
Project description:Apple (Malus domestica Borkh) is an important fruit crop cultivated in a broad range of environmental conditions. Apple fruit, and specifically peel tissue, ripening is a physiological process whose molecular regulatory networks response to different environments are still not sufficiently investigated. In this study, the influence of low (20 m) and high (750 m) altitude environmental conditions in peel tissue was assessed by physiological measurements combined with global metabolite and protein expression profiling during apple fruit development and ripening. Although apple fruit ripening was unaffected by the different environmental conditions, however several key color parameters, such as redness and the color percentage index, were induced by high altitude. Consistent with this, increased level of anthocyanin and other phenolic compounds, including cyanidin-3-O-galactoside, quercetin-3-O-rhamnoside, quercetin-3-O-rutinoside and chlorogenic acid were identified in apple peel at high altitude. Also, high altitude environment, particularly, at the ripening period, up-accumulated various carbohydrates (eg., arabinose, xylose and sucrose) while repressed glutamic acid and several related proteins such as glycine hydroxymethyltransferase and glutamate–glyoxylate aminotransferase. Other processes affected by high altitude concerned the TCA cycle, the synthesis of oxidative/defense enzymes, and the accumulation of photosynthetic proteins. Finally, we constructed a metabolite-protein network depicting the impact of altitude on peel ripening. These data provide insights into physiological processes linked to apple peel ripening across different climatic conditions and will assist in efforts to improve apple fruit appeal and quality.
2021-09-08 | PXD017037 | Pride
Project description:Apple (Malus domestica Borkh) is an important fruit crop cultivated in a broad range of environmental conditions. Apple fruit, and specifically peel tissue, ripening is a physiological process whose molecular regulatory networks response to different environments are still not sufficiently investigated. In this study, the influence of low (20 m) and high (750 m) altitude environmental conditions in peel tissue was assessed by physiological measurements combined with global metabolite and protein expression profiling during apple fruit development and ripening. Although apple fruit ripening was unaffected by the different environmental conditions, however several key color parameters, such as redness and the color percentage index, were induced by high altitude. Consistent with this, increased level of anthocyanin and other phenolic compounds, including cyanidin-3-O-galactoside, quercetin-3-O-rhamnoside, quercetin-3-O-rutinoside and chlorogenic acid were identified in apple peel at high altitude. Also, high altitude environment, particularly, at the ripening period, up-accumulated various carbohydrates (eg., arabinose, xylose and sucrose) while repressed glutamic acid and several related proteins such as glycine hydroxymethyltransferase and glutamate���glyoxylate aminotransferase. Other processes affected by high altitude concerned the TCA cycle, the synthesis of oxidative/defense enzymes, and the accumulation of photosynthetic proteins. Finally, we constructed a metabolite-protein network depicting the impact of altitude on peel ripening. These data provide insights into physiological processes linked to apple peel ripening across different climatic conditions and will assist in efforts to improve apple fruit appeal and quality.
2021-11-25 | PXD017057 | Pride
Project description:Colonic gene expression profiles of mice with DSS-induced colitis treated with apple peel polyphenolic extract Four-condition experiment: control, DSS-induced colitis, and mice treated with DAPP (two different doses (200 and 400 mg/kg/day) before or during induction and development of DSS-induced colitis.
2016-12-06 | GSE71920 | GEO
Project description:GIFT is a type of freshwater farmed fish with high economic value and nutritional value. The liver is an important organ of fish metabolism. Once it is damaged or the disease occurs, it will lead to metabolic disorders and decreased disease resistance, and may cause other secondary diseases. In the high-density intensive culture of tilapia, the feed nutrition is not balanced, especially the addition of high-fat feed. High fat content can accelerate the growth of fish, but long-term feeding of high-fat diet can lead to metabolic disorders of fish, accumulation of fat in the body, easy to cause fatty liver, and ultimately death due to liver necrosis or hemorrhage, seriously affecting the breeding benefits. The main purpose of this study was to investigate the effects of apple peel added to feed on liver fat metabolism and fat deposition in tilapia tilapia; use transcriptomics to analyze related signal regulation pathways, focusing on fat metabolism and inflammatory response; and finally screening differentially expressed genes. The development of this study is helpful to understand the molecular mechanism of apple peel extract powder-mediated liver fat metabolism and inflammatory response in GIFT, and relieve liver stress. It also provides theoretical support for the application of apple peel extract powder as a feed additiion in aquatic products.
2019-12-04 | GSE127810 | GEO
Project description:Superficial scald is a major physiological disorder in apple fruit that is induced by cold storage and is mainly expressed as brown necrotic patches on peel tissue. However, a global view of the gene-protein-metabolite interactome underlying scald prevention/sensitivity is currently missing. Herein, we have found for the first time that cold storage in an atmosphere enriched with ozone (O3) induced scald symptoms in ‘Granny Smith’ apple fruits during subsequent ripening at room temperature. In contrast, treatment with the ethylene perception inhibitor 1-methylcyclopropene (1-MCP) reversed this O3-induced scald effect. Amino acids, including branched-chain amino acids, were the most strongly induced metabolites in peel tissue of 1-MCP treated fruits. Proteins involved in oxidative stress and protein trafficking were differentially accumulated prior to and during scald development. Genes involved in photosynthesis, flavonoid biosynthesis and ethylene signaling displayed significant alterations in response to 1-MCP and O3. Analysis of regulatory module networks identified putative transcription factors (TFs) that could be involved in scald. Subsequently, a transcriptional network of the genes-proteins-metabolites and the connected TFs was constructed. This approach enabled identification of several genes co-regulated by TFs, notably encoding glutathione S-transferase (GST) protein(s) with distinct signatures following 1-MCP and O3 treatments. Overall, this study is an important contribution to future functional studies and breeding programs for this fruit, aiding to the development of improved apple cultivars to superficial scald.
2020-05-27 | PXD016849 | Pride
Project description:As mammals evolved exposed to particular diets, naturally abundant compounds may have become part of the set of environmental co-determinants that shaped brain structure and function. Here we investigated whether bioactive factors found in apples directly affect hippocampal neural stem cells and promote neurogenesis in the adult. Whereas the consumption of apple juice per se neither altered adult hippocampal neurogenesis nor improved learning and memory, we did find specific direct effects of apple-derived factors on neural stem cell survival and differentiation. Our results revealed that quercetin, the most abundant flavanol in apple peel, was anti-proliferative at high concentrations but acted pro-neurogenically at low concentrations. This was confirmed in vivo, with intraperitoneally-delivered quercetin promoting survival and neuronal differentiation, without affecting proliferation, likely via the PI3 kinase-Akt and Nrf2-Keap1 pathways, respectively. Using a bio-assay-guided fractionation approach with high-resolution collision induced dissociation mass spectroscopy, we also identified additional pro-neurogenic compounds in apple flesh that were not related to flavonoids. In particular, we found that 3,5-dihydroxybenzoic acid, a weak agonist to the lactate receptor, significantly increased both in vitro and in vivo neural precursor cell proliferation and neurogenesis. Altogether, this work shows that both flavonoids and 3,5-dihydroxybenzoic acid are pro-neurogenic, not only by activating precursor cell proliferation but also through promoting cell cycle exit, cellular survival, and neuronal differentiation.
2020-05-19 | GSE150803 | GEO
Project description:Apple peel and flesh contain pro-neurogenic compounds
| PRJNA633621 | ENA
Project description:Background miRNAs and their regulatory functions have been extensively characterized in model species but whether apple has evolved similar or unique regulatory features remains unknown. Results We performed deep sRNA-seq and identified 23 conserved, 10 less-conserved and 42 apple-specific miRNAs or families with distinct expression patterns. The identified miRNAs target 118 genes representing a wide range of enzymatic and regulatory activities. Apple also conserves two TAS gene families with similar but unique tasiRNA biogenesis profiles and target specificities. Importantly, we found that miR159, miR828 and miR858 can collectively target up to 81 MYB genes potentially involved in diverse aspects of plant growth and development. These miRNA target sites are differentially conserved among MYBs, which is largely influenced by the location and conservation of the encoded amino acid residues in MYB factors. Finally, we found that ten of the 19 miR828-targeted MYBs undergo siRNA biogenesis at the 3' cleaved, highly divergent transcript regions, generating over 100 sequence-distinct siRNAs that potentially target over 70 diverse genes as confirmed by degradome analysis. Conclusion Our work identified and characterized apple miRNAs, their expression patterns, targets and regulatory functions. We also discovered that three miRNAs and the ensuing siRNAs exploit both conserved and divergent sequence features of MYB genes to initiate distinct regulatory networks targeting a multitude of genes inside and outside the MYB family.
2012-05-29 | GSE36065 | GEO