Status

v.1.0 (July 2006): 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 ~8.39X. After trimming for vector and quality, 551090 reads assembled into 218 main genome scaffolds totaling 41.6 MB. Roughly half of the genome is contained in 13 scaffolds all at least 1.07 MB in length.

The current draft release, version 1.0, includes a total of 9196 gene models predicted and functionally annotated using the JGI annotation pipeline.

Collaborators

• US Department of Energy Joint Genome Institute (JGI)
• Lab of Nicole King at University of California Berkeley

References

King N, Westbrook MJ, Young SL, Kuo A, Abedin M, Chapman J, Fairclough S, Hellsten U, Isogai Y, Letunic I, Marr M, Pincus D, Putnam N, Rokas A, Wright KJ, Zuzow R, Dirks W, Good M, Goodstein D, Lemons D, Li W, Lyons JB, Morris A, Nichols S, Richter DJ, Salamov A, Sequencing JG, Bork P, Lim WA, Manning G, Miller WT, McGinnis W, Shapiro H, Tjian R, Grigoriev IV, Rokhsar D. The genome of the choanoflagellate. Nature. 2008 Feb 14;451(7180):783-8.

Links

• ChoanoBase

Funding

This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program and the by the University of California, Lawrence Livermore National Laboratory under Contract No. W-7405-Eng-48, Lawrence Berkeley National Laboratory under contract No. DE-AC03-76SF00098 and Los Alamos National Laboratory under contract No. W-7405-ENG-36.