Project description:N2 worms were subjected to control (well-fed), short-term dauer (6 d), or long-term dauer (40 - 49 d) conditions. Worms were recovered and maintained well-fed for 3 generations. F3 progeny were collected as fed or starved L1 larvae.
Project description:The goal of this study is to extract differentially expressed genes between K12 BW25113 and csgA(-) fed N2 and PD C. elegans. Methods: mRNA profile of K12 BW25113 and csgA(-) fed N2 and UM10 strains were generated by deep sequencing in duplicates, using BGISEQ-500. Around 20 million reads were obtained for each sample and the reads were aligned to the C. elegans genome (WS235) using STAR 2.7. To identify genes differentially expressed, the transcript counts were analyzed using DESeq2, and genes with false discovery rate–corrected p values (q values) below 0.05 and fold change above 2 or below 0.5 were identified. qRT–PCR validation was performed using TB Green Premix Ex Taq kit.
Project description:To identify potential biological targets of the TGFβ pathway involved in AVM formation, we performed ChIP-sequencing experiments on BMP9 stimulated Ms1 endothelial cells (ECs). This data provides a comprehensive list of all SMAD4 binding sites in endothelial cells.
Project description:miRNA expression was profiled before and during liver regeneration following 2/3 partial hepatectomy (PHx) in chronic ethanol-fed (EtOH) and pair-fed carbohydrate control (CHO) rats. Prior to PHx, EtOH animals were fed a liquid diet containing 36% of the calories from ethanol for 5 weeks. Left lateral and medial (LLM) lobes were removed at time of PHx and used as t = 0 biological controls. Remnant liver tissue (PHx) was harvested 1 h, 6 h, 12 h, and 24 h after PHx. RNA from 4 biological replicates was pooled for profiling miRNA expression on Agilent Rat miRNA Microarrays v1.0.
Project description:Cocoa protein content is a very interesting source for isolation of antioxidant bio-peptides, which can be used for the prevention of age-related diseases. We use microarrays to study the global genome expression of C. elegans fed with a peptide (13L) isolated from cocoa. Wild type strain N2 of C. elegans was fed with 1 µg/mL of 13L peptide or in Nematode Growth medium (MGM, control fed) until reach young adult stage. Worm population were age-synchronized. RNA was isolated from each populations (control and treated) using RNAasy Kit (Qiagen) and hybridizated on Affymetrix microarrays.
Project description:We performed carefully designed and controlled animal feeding studies. We devided 9 adult rats in three group and each group fed with one type of diets in 28 days: rice, potatoes and chow. We fed piglets in triplicate either with cow milk or let them feed from sows milk for 4 weeks followed by 7 weeks of maize diet. Based on the small RNA sequencing data from 9 rat and 6 pig serum samples, we detected no transfer of plant miRNAs into rat blood, or bovine milk sequences into piglet blood.
Project description:Differential analysis of Methylobacterium extorquens DM4 in methanol versus dichloromethane condition using shotgun label free MS1 quantification approach