Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR27212216_subreads.fastq.gz | Fastqsanger.gz | |||
| SRR27212217_subreads.fastq.gz | Fastqsanger.gz | |||
| SRR27212218_subreads.fastq.gz | Fastqsanger.gz | |||
| SRR27212219_subreads.fastq.gz | Fastqsanger.gz | |||
| SRR27212220_subreads.fastq.gz | Fastqsanger.gz |
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Project description:Energy densification and enrichment of monounsaturated fatty acids increases oat’s nutritional value among small grain cereals. However, optimization of oat oil traits is challenging through conventional breeding. Using the biolistic method for oat’s oil improvement, here we showed that metabolic engineering is a feasible strategy in improving the oil traits of oat. In this study, two constructs containing three genes involved in lipid biosynthesis pathway (AtWRI1, AtDGAT, and SiOLEOSIN) were transformed into oat cultivar ‘Park’ to enhance the oil composition and content in oat grain and leaves. We performed RNA-sequencing in mature seeds and boot leaves of trasngenic lines. Transgene expression contributed to a global transcriptional reprogramming in oat seeds and leaves. Endogenous DGAT, WRI1, and OLEOSIN genes were up regulated while the genes involved in fatty acid biosynthesis expressed in opposite way between oat seeds and leaves. Transcriptomic studies revealed differential gene expression mainly enriched in lipid metabolism.
2024-12-06 | GSE249079 | GEO
Project description:Pancreatic ductal adenocarcinoma (PDA) cells have a distinct dependence on de novo ornithine synthesis from glutamine via ornithine aminotransferase (OAT), which supports polyamine synthesis and is required for tumor growth. This directional OAT activity is normally largely restricted to infancy and contrasts with the reliance of most adult normal tissues and other cancer types on arginase (ARG) to generate arginine-derived ornithine, the substrate for polyamine synthesis. This dependence associates with arginine depletion in PDA tumor microenvironment, and is driven by mutant KRAS, which induces the expression of OAT and polyamine synthesis enzymes, including the rate-limiting enzyme ornithine decarboxylase-1 (ODC1). Loss of OAT, but not ARG2, largely mimics loss of ODC1, altering the transcriptional profiles in PDA cells, which in turn correlate with alterations in open chromatin states.
2023-01-01 | GSE193411 | GEO
Project description:We describe a unique phenotype, blastulation failure, in three primary infertile males with oligoasthenoteratozoospermia (OAT) who underwent intracytoplasmic sperm injection (ICSI), resulting in multiple good-quality cleavage embryos that repeatedly failed to achieve blastulation or implantation. Single-cell analysis revealed that the arrested embryos had complex spermatozoa-derived chromosomal abnormalities, major embryonic genome activation failure, and overactivation of stress and apoptosis pathways at the transcriptional level. We further identified mutations in the meiosis-specific kinetochore factor MEIKIN gene in these males, causing OAT and chromosomal chaos in the spermatozoa. This study is the first to establish a connection between the genetic etiology of OAT and a novel embryo development arrest phenotype, indicating potenial risks of ICSI for OAT patients and providing a new explanation for recurrent implantation failure.
2024-06-30 | GSE234683 | GEO
Project description:The goal was to measure the postprandial effect of an oat bran meal on gene expression in leukocytes from healthy subjects and to investigate the postprandial glucose, insulin and triglyceride responses. Linear mixed models were used for the array data to study the simultaneous dependency on many factors and functional categories of genes whose expression were correlated with oat bran intake were determined.
2010-07-01 | E-MEXP-2261 | biostudies-arrayexpress
Project description:To invistage the transcsriptome re-programming from oat grain development to germination
2024-01-03 | GSE224726 | GEO
Project description:probiotics and prebiotics to maternal diets is related to decreased incidence of diarrhea and greater weight gain during lactation. Our objective was to determine the impact of adding whole ground oat as a prebiotic alone or in combination with postbiotic yeast culture (YC) (Saccharomyces cerevisiae) to sow gestation and lactation rations on milk composition, piglet growth, and incidence of post weaning diarrhea (PWD). Diets: control (CON), CON + yeast culture (YC) [5g/kg], CON + oat (15% inclusion rate) (Oat) or CON+ YC [5g/kg] + Oat (15%) were fed during the last 30 days of gestation and throughout lactation (18-21 days). Shotgun proteome analysis of day 4 and 7 postpartum milk samples found 36 differentially abundant proteins (P-adj <0.1) in both Oat and YC supplemented sows relative to CON. Notable was increased expression of antimicrobial proteins, lactoferrin and chitinase. IgG in milk of Oat supplemented sows was lower than YC supplemented sows (p<0.05) but had greater E. coli-antigen reactivity. Piglet weights at birth were similar. At weaning YC + Oat piglets weighed less and gained less weight (p<0.05) postweaning than CON. The incidence of PWD was lowest in the YC and Oat groups compared to CON and YC+ Oat groups. These data suggest that Oat or YC culture supplementation alters milk immune and antimicrobial associated proteins that can impact piglets but may have negative effects on piglet growth when given in combination.
2020-12-05 | MSV000086562 | MassIVE
Project description:RNA-seq time course covering the first 2 hours after gentle brushing of the second leaf in oat, wheat and barley.
2023-04-19 | E-MTAB-11762 | biostudies-arrayexpress
Project description:Background & Aims: Non-alcoholic fatty liver disease (NALFLD)-associated changes in gut microbiota are important drivers of disease progression toward fibrosis. Therefore, reversing microbiota alterations could ameliorate NAFLD progression. Oat beta-glucan, a non-digestible polysaccharides, has shown promising therapeutic effects on hyperlipidemia associated with NAFLD, but its impact on gut microbiota and most importantly NAFLD fibrosis remains unknown. Methods: We performed detailed metabolic phenotyping including body composition, glucose tolerance, and lipid metabolism as well as comprehensive characterization of the gut-liver axis in a western-style diet (WSD)-induced model of NAFLD and assessed the effect of a beta-glucan intervention on early and advanced liver disease. Gut microbiota was modulated using broad-spectrum antibiotic (Abx) treatment. Results: Oat beta-glucan supplementation did not affect WSD-induced body weight gain, glucose intolerance, and the metabolic phenotype remained largely unaffected. Interestingly, oat beta-glucan dampened NAFLD inflammation, associated with significantly reduced monocyte-derived macrophages (MoMFs) infiltration, fibroinflammatory gene expression, and strongly reduced fibrosis development. Mechanistically, this protective effect was not mediated by changes in bile acid composition or signaling, but was dependent on gut microbiota and was lost upon Abx treatment. Specifically, oat beta-glucan partially reversed unfavorable changes in gut microbiota, resulting in an expansion of protective taxa, including Ruminococcus, and Lactobacillus followed by reduced translocation of TLR ligands. Conclusions: Our findings identify oat beta-glucan as a highly efficacious food supplement that dampens inflammation and fibrosis development in diet-induced NAFLD. These results, along with its favorable dietary profile, suggest that it may be a cost-effective and well-tolerated approach to preventing NAFLD progression and should be assessed in clinical studies.
2024-01-01 | GSE246738 | GEO
Project description:This study was conducted to evaluate the efficiency of cross-species detection in Barley1 GeneChip array. We hybridized cRNA derived from first leaves of barley green seedlings (as a control), as well as the same stage of seedling leaf from representative genotypes of wheat, oat, rice, maize, and sorghum. Ten to twenty seedlings for each species were harvested and pooled for RNA preparation, labeling, and hybridization. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Rico Caldo. The equivalent experiment is BB1 at PLEXdb.] species: Barley(2-replications); species: Wheat(2-replications); species: Oat(2-replications); species: Sorghum(2-replications); species: Corn(2-replications); species: Rice(2-replications)
2011-11-22 | E-GEOD-33391 | biostudies-arrayexpress
Project description:Infection of Belinda and Argamak oat varieties with Fusarium
2020-03-10 | PXD016706 | Pride