Tetraodon genome project

The Tetraodon genome project is a collaboration between Genoscope and the Broad Institute (MIT). This Ensembl website presents sequence data and analyses provided by the two institutes.

The project was supported by the Consortium National de Recherche en Genomique and the National Human Genome Research Institute.

Genes were annotated by Genoscope, combining evidence from Geneid, Genscan, Genewise and Exofish predictions with alignments of Tetraodon cDNAs to the genome. The annotation also includes 87 manually curated structures of a number of HOX and Cytokine genes.

MetaFishNet: a way to advance fish metabolic modeling

Recently scientists from USA and Germany have constructed a genome-wide fish metabolic network model, MetaFishNet. The recent completion of genome sequencing of five fish species (Danio. rerio, Oryzias latipes, Tetraodon rubripes, T. nigroviridis and Gasterosteus aculeatus) has paved the way for constructing a genome-wide fish metabolic network model.

All metabolic enzymes have been identified from complete genomes by sequence analysis, compounds were then be associated with enzymatic activities and a metabolic network was constructed by linking these compounds and enzymes. The first and primary role of MetaFishNet model is a bioinformatic tool for analyzing high throughput expression data, as well as a framework for future systems studies. This genome-wide model offers a significant expansion of the KEGG zebrafish model. MetaFishNet can be used compare fish and human metabolism to identify the most and least conserved pathways.

This study is published in the November, 2010 issue of Genome Biology.
http://genomebiology.com/2010/11/11/R115