HomeResearchExtramural ResearchThe Large-Scale Genome Sequencing ProgramApproved Sequencing Targets Fruitfly Genome Sequencing

Fruitfly Genome Sequencing

The Drosophila melanogaster genome sequencing project was essentially completed in March of 2000. Sequencing was begun using mapped large-insert clones, but completed using a whole genome shotgun (WGS) approach; it represents the first demonstration of the WGS approach to sequencing in a multicellular organism.

The D. melanogaster genome sequencing project was led by the Berkeley Drosophila Genome Project (BDGP); the WGS effort was carried out in collaboration with Celera Genomics. Subsequently, the sequence was finished to high quality, an effort carried out by the BDGP in collaboration with the Baylor College of Medicine Genome Sequencing Center. The National Human Genome Research Institute, the National Cancer Institute, the National Institute of General Medical Sciences, and the Howard Hughes Medical Institute supplied funding for the D. melanogaster genome project. Celera Genomics contributed the WGS reads and assemblies.

The National Human Genome Research Institute (NHGRI) subsequently supported a D. pseudoobscura genome sequencing project, undertaken by Baylor College of Medicine Genome Sequencing Center, aimed at producing 7-fold WGS coverage of the D. pseudoobscura genome. The assembled sequence, released in August 2003, will be used to compare with the D. melanogaster sequence to reveal conserved regions.

NHGRI currently supports a number of other Drosophila genomic sequencing projects: Drosophila simulans, D. yakuba, D. ananassae, D. erecta, D. willistoni, D. grimshawi,D. mojavensis, D. virilis, D. persimilis,and D. sechellia.These sequences will further aid in the comparative analysis and annotation of the D. melanogastersequence. These projects have been undertaken by Washington University, Agencourt Biosciences Corporation, and J. Craig Venter Institute.

Genome Sequencing Whitepaper Proposals:

• Drosophila simulans and Drosophila yakuba
  Draft Assembly
  (Submitted Feb. 2003)
  
  
• Drosophila ananassaae, D. erecta, D. grimshawi, D. mojavensis, D. persimilis, D. sechellia, D. virilis, and D. willistoni
  Draft Assembly
  (Submitted June 2003)
  
  
• Drosophila Genetic Reference Panel
  Deep coverage of one strain with sequencing of three aditional strains, if successful
  (Submitted September 2007)
  
  
• Drosophila Genetic Reference Panel
  Draft coverage of 192 lines
  (Submitted May 2008)
  
  To view these PDFs you will need Adobe Acrobat Reader.

Project Links

• Berkeley Drosophila Genome Project (BDGP)
  • D. melanogaster [fruitfly.org]
• Baylor College of Medicine Genome Sequencing Center
  • D. pseudoobscura [hgsc.bcm.tmc.edu]
• Washington University in St. Louis Genome Sequencing Center
  • D. simulans [genome.wustl.edu]
  • D. yakuba [genome.wustl.edu]
• Agencourt Biosciences Corporation [agencourt.com]
• J. Craig Venter Institute [venterinsitiute.org]
• Celera Genomics [celera.com]

Supporting Institutions

• NCI [cancer.gov]
• NIGMS [nigms.nih.gov]
• Howard Hughes Medical Institute [hhmi.org]

Additional Resources

Sequence and Assembly

• Individual Sequence Reads:
  • NCBI Trace Archive [ncbi.nlm.nih.gov]
    • D. ananassae
    • D. erecta
    • D. grimshawi
    • D. melanogaster
    • D. mojavensis
    • D. persimilis
    • D. pseudoobscura
    • D. sechellia
    • D. simulans
    • D. virilis
    • D. willistoni
    • D. yakuba
  • Ensembl Trace Server [trace.ensembl.org]
    
    
• D. melanogaster Sequence Assembly
  • NCBI [ncbi.nlm.nih.gov]
  • Ensembl [ensembl.org]
  • Baylor [hgsc.bcm.tmc.edu]
  • UCSC [genome.ucsc.edu]

Model Organism Database

• Fly Base [fruitfly.org]

ESTs

• dbEST [ncbi.nlm.nih.gov] - Database of ESTs at NCBI
• Baylor College of Medicine - Genome Sequence FTP site
  • D. melanogaster [hgsc.bcm.tmc.edu] (ftp)
  • D. pseudoobscura [hgsc.bcm.tmc.edu] (ftp)
• Berkley Drosphila Genome Project ESTs [fruitfly.org]

cDNAs

• Berkley Drosphila Genome Project (BDGP) Library [fruitfly.org]

BAC Libraries

• Arizona Genome Institute (AGI/CUGI) - Drosophila BAC libraries
  • Drosophila americana BAC Library [genome.arizona.edu]
  • Drosophila ananassae BAC Library [genome.arizona.edu]
  • Drosophila erecta BAC Library [genome.arizona.edu]
  • Drosophila grimshawi BAC Library [genome.arizona.edu]
  • Drosophila mercatorum BAC Library [genome.arizona.edu]
  • Drosophila mojavenis BAC Library [genome.arizona.edu]
  • Drosophila novamexicana BAC Library [genome.arizona.edu]


• Children's Hospital Oakland Research Institute (CHORI) - Drosophila BAC libraries
  • Drosophila erecta Fosmid Library [bacpac.chori.org]
  • Drosophila melanogaster BAC Library [bacpac.chori.org]
  • Drosophila pseudoobscura BAC Library [bacpac.chori.org]
  • Drosophila pseudoobscura Fosmid Library [bacpac.chori.org]
  • Drosophila virilis Fosmid Library [bacpac.chori.org]
  • Drosophila willistoni Fosmid Library [bacpac.chori.org]

Other Related Sites

• Berkeley Genome Pipeline [pipeline.lbl.gov]

Top of page

Last Reviewed: November 26, 2008