E-GEOD-42846 - Marker gene discovery for Staphylococcus epidermidis infection in zebrafish embryos (RNA-Seq)

Status
Released on 1 April 2013, last updated on 4 May 2014
Organism
Danio rerio
Samples (8)
Protocols (4)
Description
We use the zebrafish embryo model to study the innate immune response against Staphylococcus epidermidis. Therefore, we injected S. epidermidis into the yolk at 2 hpf and took samples at 5 days post injection. This deep sequence study was designed to determine the gene expression profile by Staphylococcus epidermidis infection. RNA was isolated from embryos at 5 days post injection. Wildtypes zebrafish embryos were micro-injected into the yolk (2hpf) with 20 CFU of S. epidermdis O-47 mCherry bacteria suspended in PVP (Polyvinylpyrrolidone), or Non-injected as a control. After injections embryos were transferred into fresh egg water and incubated at 28°C. At 5 days post injection 100-200 embryos per group were snap-frozen in liquid nitrogen, and total RNA was isolated using TRIZOL reagent.
Experiment type
RNA-seq of coding RNA 
Contacts
Wouter Veneman <w.j.veneman@biology.leidenuniv.nl>, A H Meijer, H P Spaink, W J Veneman
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-42846.idf.txt
Sample and data relationshipE-GEOD-42846.sdrf.txt
Processed data (1)E-GEOD-42846.processed.1.zip
Links