Status
v3.0 (April, 2009): The finished version of Micromonas commoda 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.
This v3.2 annotation (Nov 2013) is improved with RNA-Seq and manual curation.
Summary statistics for the Micromonas commoda RCC299 v3.2
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 20.99 |
| Sequencing read coverage depth | Finished |
| # of contigs | 17 |
| # of scaffolds | 17 |
| # of scaffolds >= 2Kbp | 17 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 1.39 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.05, 1.91, 1.76 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | JGI_ESTs | 28460 | 27552 | 96.8% |
| Other | JGI_EST_cluster_consensi | 4838 | 4458 | 92.1% |
| Gene Models | MBARI_models | |
| length (bp) of: | average | median |
| gene | 1893 | 1501 |
| transcript | 1812 | 1425 |
| exon | 1182 | 852 |
| intron | 154 | 133 |
| description: | ||
| protein length (aa) | 554 | 429 |
| exons per gene | 1.53 | 1 |
| # of gene models | 10262 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Worden AZ, Lee JH, Mock T, Rouzé P, Simmons MP, Aerts AL, Allen AE, Cuvelier ML, Derelle E, Everett MV, Foulon E, Grimwood J, Gundlach H, Henrissat B, Napoli C, McDonald SM, Parker MS, Rombauts S, Salamov A, Von Dassow P, Badger JH, Coutinho PM, Demir E, Dubchak I, Gentemann C, Eikrem W, Gready JE, John U, Lanier W, Lindquist EA, Lucas S, Mayer KF, Moreau H, Not F, Otillar R, Panaud O, Pangilinan J, Paulsen I, Piegu B, Poliakov A, Robbens S, Schmutz J, Toulza E, Wyss T, Zelensky A, Zhou K, Armbrust EV, Bhattacharya D, Goodenough UW, Van de Peer Y, Grigoriev IV
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas.
Science. 2009 Apr 10;324(5924):268-72. doi: 10.1126/science.1167222
Worden AZ, Lee JH, Mock T, Rouzé P, Simmons MP, Aerts AL, Allen AE, Cuvelier ML, Derelle E, Everett MV, Foulon E, Grimwood J, Gundlach H, Henrissat B, Napoli C, McDonald SM, Parker MS, Rombauts S, Salamov A, Von Dassow P, Badger JH, Coutinho PM, Demir E, Dubchak I, Gentemann C, Eikrem W, Gready JE, John U, Lanier W, Lindquist EA, Lucas S, Mayer KF, Moreau H, Not F, Otillar R, Panaud O, Pangilinan J, Paulsen I, Piegu B, Poliakov A, Robbens S, Schmutz J, Toulza E, Wyss T, Zelensky A, Zhou K, Armbrust EV, Bhattacharya D, Goodenough UW, Van de Peer Y, Grigoriev IV
Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas.
Science. 2009 Apr 10;324(5924):268-72. doi: 10.1126/science.1167222
Funding
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.
