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SRX1021205: GSM1678058: DMSO_Control_2; Danio rerio; RNA-Seq
1 ILLUMINA (Illumina Genome Analyzer IIx) run: 5.5M spots, 414.3M bases, 205.5Mb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Injury-activated endocardium plays structural and signalling roles in zebrafish heart regeneration
show Abstracthide Abstract
The zebrafish heart remarkably regenerates after a severe ventricular damage followed by inflammation, fibrotic tissue deposition and removal concomitant with cardiac muscle replacement. We have investigated the role of the endocardium in this regeneration process. 3D-whole mount imaging in injured hearts revealed that GFP-labelled endocardial cells in ET33mi-60A transgenic fish become rapidly activated and highly proliferative at 3 days post cryoinjury (dpci). Endocardial cells extensively expand within the injury site and organize to form a coherent structure at 9 dpci that persists throughout the regeneration process. Upon injury, endocardial cells strongly up-regulate the Notch pathway ligand delta like4 (dll4) and the Notch receptors notch1b, notch2 and notch3. Expression profiling showed that Notch signalling inhibition affects endocardial gene expression and genes related to extracellular matrix remodelling and inflammation. Gain- and loss-of-function experiments revealed that Notch is required for the organization of the endocardium, attenuation of the inflammatory response and cardiomyocyte proliferation. These results demonstrate a novel structural and signalling role for the endocardium during heart regeneration. Overall design: RNA was extracted from apical tip of heart ventricles 72h after cryoinjured adult zebrafish heart treated with DMSO (Controls) or RO gamma secretase inhibitor at 24 and 48h post injury.
Sample: DMSO_Control_2
SAMN03611822 • SRS931173 • All experiments • All runs
Organism: Danio rerio
Library:
Instrument: Illumina Genome Analyzer IIx
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Total RNA was extracted using Trizol (Invitrogen) And then purified on Rneasy spin columns (Qiagen). RNA integrity (RNA Integrity Score ≥ 7.9) And quantity were determined on the Agilent 2100 Bioanalyzer. RNA libraries were prepared for sequencing using TruSeq RNA Sample Preparation Kit v2 standard Illumina protocols
Experiment attributes:
GEO Accession: GSM1678058
Links:
External link:
Runs: 1 run, 5.5M spots, 414.3M bases, 205.5Mb
Run# of Spots# of BasesSizePublished
SRR20133885,524,246414.3M205.5Mb2017-04-03

ID:
1478279

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