Micromonas pusilla NOUM17 (RCC 299)
Please note that this organism is for archival use only. Please see the current Micromonas commoda NOUM17 (RCC 299) site for the latest data and information.

Status

v3.0 (April, 2009): The finished version of Micromonas strain RCC299 v3.0 contains 17 complete chromosomes represented telomere to telomere with a total genome size of 21 Mbp. The chromosomes have been numbered 1-17, largest to smallest. A total of 10,109 gene models were mapped forward from v2.0 to the v3.0 Gene Catalog. The Gene Catalog contains 2519 manually curated gene models as well as models predicted and functionally annotated using the JGI annotation pipeline.

v2.0 (February 15, 2008): The finished version of Micromonas strain RCC299 v2.0 contains 17 chromosomes represented telomere to telomere with 5 gaps and a total genome size of 21 Mbp. The chromosomes have been numbered 1-17, largest to smallest. A total of 10,056 gene models were predicted and functionally annotated using the JGI annotation pipeline.

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 8.9x. After trimming for vector and quality, 274,180 reads assembled into 251 scaffolds totaling 22.3 Mb. Roughly half of the genome is contained in 7 scaffolds all at least 1.4 Mb in length. The v. 1.0 assembly includes a total of 8,007 gene models predicted and functionally annotated using the JGI annotation pipeline.

Collaborators

References

Alexandra Z. Worden, Jae-Hyeok Lee, Thomas Mock, Pierre Rouze, Melinda P. Simmons, Andrea L. Aerts, Andrew E. Allen, Marie L. Cuvelier, Evelyne Derelle, Meredith V. Everett, Elodie Foulon, Jane Grimwood, Heidrun Gundlach, Bernard Henrissat, Carolyn Napoli, Sarah M. McDonald, Micaela S. Parker, Stephane Rombauts, Aasf Salamov, Peter Von Dassow, Jonathan H. Badger, Pedro M. Coutinho, Elif Demir, Inna Dubchak, Chelle Gentemann, Wenche Eikrem, Jill E. Gready, Uwe John, William Lanier, Erika A. Lindquist, Susan Lucas, Klaus F. X. Mayer, Herve Moreau, Fabrice Not, Robert Otillar, Olivier Panaud, Jasmyn Pangilinan, Ian Paulsen, Benoit Piegu, Aaron Poliakov, Steven Robbens, Jeremy Schmutz, Eve Toulza, Tania Wyss, Alexander Zelensky, Kemin Zhou, E. Virginia Armbrust, Debashish Bhattacharya, Ursula W. Goodenough, Yves Van de Peer, Igor V. Grigoriev Green Evolution and Dynamic Adaptations Revealed by Genomes of the Marine Picoeukaryotes Micromonas. Science. 2009 April 10;324(5924):268-272

Links

Movie

  • Paraphysomonas grazing on M. pusilla NOUM17 (mpg): Micromonas are red (a function of chlorophyll fluorescence from their chloroplasts) and can be seen swimming in and out of the field. The greenish particles are the stained food vacuoles of Paraphysomonas, a eukaryotic heterotrophic microbe or “grazer”. The red/orange in the “gut” of Paraphysomonas are ingested Micromonas cells The acidic food vacuole of Paraphysomonas is stained with Lysotracker Green. Contributed by the Worden Lab (H. Moehlig).

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.

Funding for preparation of cell lines, genomic and transcriptomic material as well as manual annotation was provided by a Gordon & Betty Moore Young Investigator Award in Marine Microbiology to A.Z. Worden.