Status
The genome sequence and gene models of Thalassiosira oceanica have not been determined by the JGI, but were downloaded from NCBI, on October 26, 2017. In order to allow comparative analyses with other genomes sequenced by the Joint Genome Institute, a copy of this genome is incorporated into the JGI Genome Portal. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.
Summary statistics for the Thalassiosira oceanica CCMP1005
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 92.19 |
| Sequencing read coverage depth | 8.7x |
| # of contigs | 50892 |
| # of scaffolds | 50892 |
| # of scaffolds >= 2Kbp | 12905 |
| Scaffold N50 | 6760 |
| Scaffold L50 (Mbp) | 0.00 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.14, 0.06, 0.04 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1255 | 921 |
| transcript | 1065 | 780 |
| exon | 466 | 320 |
| intron | 150 | 93 |
| description: | ||
| protein length (aa) | 355 | 260 |
| exons per gene | 2.29 | 2 |
| # of gene models | 34642 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Lommer M, Specht M, Roy AS, Kraemer L, Andreson R, Gutowska MA, Wolf J, Bergner SV, Schilhabel MB, Klostermeier UC, Beiko RG, Rosenstiel P, Hippler M, LaRoche J
Genome and low-iron response of an oceanic diatom adapted to chronic iron limitation.
Genome Biol. 2012 Jul 26;13(7):R66. doi: 10.1186/gb-2012-13-7-r66
Lommer M, Roy AS, Schilhabel M, Schreiber S, Rosenstiel P, LaRoche J
Recent transfer of an iron-regulated gene from the plastid to the nuclear genome in an oceanic diatom adapted to chronic iron limitation.
BMC Genomics. 2010 Dec 20;11():718. doi: 10.1186/1471-2164-11-718
Lommer M, Specht M, Roy AS, Kraemer L, Andreson R, Gutowska MA, Wolf J, Bergner SV, Schilhabel MB, Klostermeier UC, Beiko RG, Rosenstiel P, Hippler M, LaRoche J
Genome and low-iron response of an oceanic diatom adapted to chronic iron limitation.
Genome Biol. 2012 Jul 26;13(7):R66. doi: 10.1186/gb-2012-13-7-r66
Lommer M, Roy AS, Schilhabel M, Schreiber S, Rosenstiel P, LaRoche J
Recent transfer of an iron-regulated gene from the plastid to the nuclear genome in an oceanic diatom adapted to chronic iron limitation.
BMC Genomics. 2010 Dec 20;11():718. doi: 10.1186/1471-2164-11-718
Funding
This project was not sequenced at the JGI.
