Info • Daphnia pulex


Daphnia pulex genome assembly v1.0. The assembly release version 1.0 of whole genome shotgun reads was constructed with the JGI assembler, Jazz, using paired end sequencing reads at a coverage of 8.7x. After trimming for vector and quality, 1,591,853 reads assembled into 9080 scaffolds totaling 227.1 Mbp. Further exclusion of contaminant and mis-assembled scaffolds reduced this to 5191 scaffolds, with a total length of 197.3 Mbp. Roughly half of the genome is contained in 103 scaffolds all at least 469.5 Kb in length.The current draft release, version 1.0, includes a total of 30,907 gene models predicted and functionally annotated using the JGI annotation pipeline.


  • John Kenneth Colbourne, Center for Genomics and Bioinformatics, Indiana University
  • Daphnia Genomics Consortium
    • Michael Pfrender, Utah State University
    • Jeffrey Boore, University of California
    • Michael Lynch, Indiana University
    • W. Kelley Thomas, University of New Hampshire
    • Donald Gilbert, Indiana University
    • Joshua Hamilton, Dartmouth College
    • Justen Andrews, Indiana University

Genome Reference(s)


The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.