Project description:Melanocytes of the skin have traditionally been viewed as a homogeneous population, however, recent findings suggest the existence of distinct cell states within the melanocyte population. To investigate this further, we employed the zebrafish as a valuable model system for studying melanocyte biology. The zebrafish offers advantages such as its transparent nature and the availability of transgenic lines that allow specific labeling of melanocytes. In our study, we utilized a transgenic zebrafish line, Tg(mifa:GFP), that expresses green fluorescent protein (GFP) under the control of a melanocyte-specific promoter, mitfa, labelling only those cells in which mitfa promoter is active. We then performed single-cell RNA sequencing (scRNA-seq) analysis to explore the diversity of mitfa:GFP-positive cells.
Project description:To investigate the transcriptomic alterations following 24hpf knockdown of the gene HNRNPAB in zebrafish, we injected HNRNPAB morpholino with 3ng and 6ng into 1-cell zebrafish embryos separately, and the 24hpf embryos were collected for RNA-seq.
Project description:In order to detect transcriptional differences between primitive and definitive hematopoietic stem and progenitor cells during regular development in the zebrafish embryo, gata1-GFP+/+(18 somites), lmo2-GFP+/+ (18 somites and 35 hpf)1 and cd41-GFP+/+ (35 hpf) cells from transgenic embryos were individually separated from GFP-/- cells by flow cytometry at the indicated stages. For each individual population, pools of 600 - 1500 transgenic embryos were collected. After RNA extraction, labelled cRNA was hybridized onto Affymetrix microarrays. Individual experiments were performed with 2 or 3 biological replicates. Keywords: cell type comparison
Project description:In this study, single cell sequencing technique was utilized to explore the transcriptomes of zebrafish PGCs in three time points: 6hpf (shield stage), 11hpf (3-somite stage) and 24hpf (prim-5 stage).
Project description:Investigation of expression differences between melanomas harvested from MiniCoopR-GFP versus MiniCoopR-SETDB1 transgenic zebrafish. An eight-chip study using total RNA prepared from four distinct melanomas from zebrafish injected with MiniCoopR-GFP (control) transposon and four distinct melanomas from zebrafish injected with MiniCoopR-SETDB1 transposon. Injected animals carried a p53 loss-of-function mutation, a mutation in nacre, and an mitf:BRAF-V600E transgene. Each chip measures the expression level of 32,292 genes.
Project description:Identification of genes differentially regulated after treatment of zebrafish embryos from 50% epiboly to 24hpf with 6.5uM leflunomide
Project description:The sclerotome region of the somite (labelled by nkx3.1:Gal4-VP16; UAS:NTR-mCherry) gives rise to numerous fibroblasts populations in the zebrafish trunk. We performed single cell RNA sequencing (scRNA-seq) on sclerotome-derived fibroblasts from 52 hpf embryos to determine population heterogeneity and plasticity.
Project description:Identification of genes differentially regulated after treatment of zebrafish embryos from 50% epiboly to 24hpf with 6.5uM leflunomide A six chip study comparing expression levels of zebrafish embryos treated with leflunomide 6.5uM
Project description:Zebrafish were fed IROA labelled nematodes (smaple 1-4); In a second experiment, zebrafish larvae were exposed to DEHP, a chemical that is a suspected obesogen.