Status
The genome sequence and gene models of Saprolegnia parasitica CBS 223.65 were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on October 20, 2017. In order to allow comparative analyses with other heterokont genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. JGI tools were used to automatically annotate predicted proteins. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.
Summary statistics for the Saprolegnia parasitica CBS
223.65 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 53.09 |
| Sequencing read coverage depth | |
| # of contigs | 4125 |
| # of scaffolds | 1442 |
| # of scaffolds >= 2Kbp | 1442 |
| Scaffold N50 | 46 |
| Scaffold L50 (Mbp) | 0.28 |
| # of gaps | 2683 |
| % of scaffold length in gaps | 9.3% |
| Three largest Scaffolds (Mbp) | 1.62, 1.57, 1.28 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1522 | 1204 |
| transcript | 1347 | 1062 |
| exon | 337 | 182 |
| intron | 60 | 51 |
| description: | ||
| protein length (aa) | 432 | 336 |
| exons per gene | 4.00 | 3 |
| # of gene models | 20113 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Jiang RH, de Bruijn I, Haas BJ, Belmonte R, Löbach L, Christie J, van den Ackerveken G, Bottin A, Bulone V, DÃaz-Moreno SM, Dumas B, Fan L, Gaulin E, Govers F, Grenville-Briggs LJ, Horner NR, Levin JZ, Mammella M, Meijer HJ, Morris P, Nusbaum C, Oome S, Phillips AJ, van Rooyen D, Rzeszutek E, Saraiva M, Secombes CJ, Seidl MF, Snel B, Stassen JH, Sykes S, Tripathy S, van den Berg H, Vega-Arreguin JC, Wawra S, Young SK, Zeng Q, Dieguez-Uribeondo J, Russ C, Tyler BM, van West P
Distinctive expansion of potential virulence genes in the genome of the oomycete fish pathogen Saprolegnia parasitica.
PLoS Genet. 2013 Jun;9(6):e1003272. doi: 10.1371/journal.pgen.1003272
Jiang RH, de Bruijn I, Haas BJ, Belmonte R, Löbach L, Christie J, van den Ackerveken G, Bottin A, Bulone V, DÃaz-Moreno SM, Dumas B, Fan L, Gaulin E, Govers F, Grenville-Briggs LJ, Horner NR, Levin JZ, Mammella M, Meijer HJ, Morris P, Nusbaum C, Oome S, Phillips AJ, van Rooyen D, Rzeszutek E, Saraiva M, Secombes CJ, Seidl MF, Snel B, Stassen JH, Sykes S, Tripathy S, van den Berg H, Vega-Arreguin JC, Wawra S, Young SK, Zeng Q, Dieguez-Uribeondo J, Russ C, Tyler BM, van West P
Distinctive expansion of potential virulence genes in the genome of the oomycete fish pathogen Saprolegnia parasitica.
PLoS Genet. 2013 Jun;9(6):e1003272. doi: 10.1371/journal.pgen.1003272
Funding
This project was not sequenced at the JGI.
