Status

v1.0 (August 18 2008): The draft assembly release version 1.0 of whole genome shotgun reads was constructed with Arachne, using paired end sequencing reads at an average coverage of 8.41X. After trimming for vector and quality, the sequencing reads assembled into 799 main genome scaffolds totaling 33.0 MB. Roughly half of the genome is contained in 156 scaffolds all at least 67 kbp in length.

The draft annotation release version 1.0 (12 February 2007) includes a total of 12410 gene models predicted and functionally annotated using the JGI Annotation Pipeline.

Collaborators

• US Department of Energy Joint Genome Institute (JGI)
• Richard Sucgang, Baylor College of Medicine
• Joan Strassman, Rice University
• David Queller, Rice University
• Adam Kuspa, Baylor College of Medicine

References

Sucgang R, Kuo A, Tian X, Salerno W, Parikh A, Feasley CL, Dalin E, Tu H, Huang E, Barry K, Lindquist E, Shapiro H, Bruce D, Schmutz J, Salamov A, Fey P, Gaudet P, Anjard C, Babu MM, Basu S, Bushmanova Y, van der Wel H, Katoh-Kurasawa M, Dinh C, Coutinho PM, Saito T, Elias M, Schaap P, Kay RR, Henrissat B, Eichinger L, Rivero F, Putnam NH, West CM, Loomis WF, Chisholm RL, Shaulsky G, Strassmann JE, Queller DC, Kuspa A, Grigoriev IV.Comparative genomics of the social amoebae Dictyostelium discoideum and Dictyostelium purpureum. Genome biology. 2011 Feb 28;12(2):R20.[Epub ahead of print]

Links

• dictyBase
• Functional Genomics of Dictyostelium at Baylor College of Medicine
• Dictyostelium discoideum Genome Project (http://www.sanger.ac.uk/Projects/D_discoideum/ and http://genome.imb-jena.de/dictyostelium/)

Funding

This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02-05CH11231, Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344, and Los Alamos National Laboratory under contract No. DE-AC02-06NA25396.