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Pufferfish Genome Sequencing: Tetraodon nigroviridis

The Tetraodon nigroviridis whole genome shotgun (WGS) sequencing project was started at Genoscope in 1997. In June 2001, The Whitehead Institute/MIT Genome Sequencing Center, with support from NHGRI, joined Genoscope in this project to accelerate the effort.

The genome has been assembled using over 3 million shotgun sequence reads, which represents 6-fold genome sequence coverage. These reads were then layered on a physical map, resulting in over 108,000 contigs representing 70 percent of the T. nigroviridis genome. In addition to the random sequencing approach, specific regions of interest are being sequenced to finished quality at Genoscope.

Project Link

• Genscope Tetraodon nigroviridis [genoscope.cns.fr] - Whole Genome Shotgun

Sequencing Center Sites

• Genescope [genoscope.cns.fr]
• Broad Institute of MIT and Harvard [http://www.broad.mit.edu/]

Additional Resources

Sequence and Assembly

• Individual Sequence Reads:
  • NCBI Trace Archive [ncbi.nlm.nih.gov]
  • Ensembl Trace Server [trace.ensembl.org]
  • GenBank [ncbi.nlm.nih.gov]
  • DNA Data Bank of Japan (DDBJ) [ddbj.nig.ac.jp]
    (accession numbers) AL163976 and AL352938
    
    
• Sequence Assembly:
  • Genoscope [genoscope.cns.fr]

Model Organism Database

• Genoscope [genoscope.cns.fr] - Genome Analysis
• Whitehead Institute [genome.wi.mit.edu]

BACs, Cosmids, Plasmids

• Genoscope Library [genoscope.cns.fr]

ESTs

• dbEST [ncbi.nlm.nih.gov] - Database of ESTs at NCBI

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Last Updated: October 31, 2008