Status
The genome of P. teres f. teres has been sequenced and assembled from short 200 bp DNA fragment paired-end 75 bp Solexa reads (Ellwood et al, 2010). The assembly is composed of a relatively large number of scaffolds (6,412 greater than 200 bp) due to the difficulty of short read assembly in repetitive regions, while gene-rich and more complex regions are represented. Genes were predicted using GeneMark-ES; only predicted proteins of at least 50 amino acids were included.
Summary statistics for the Pyrenophora teres f. teres v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 33.58 |
| Sequencing read coverage depth | 20 |
| # of contigs | 6424 |
| # of scaffolds | 6412 |
| # of scaffolds >= 2Kbp | 1428 |
| Scaffold N50 | 274 |
| Scaffold L50 (Mbp) | 0.04 |
| # of gaps | 12 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.30, 0.22, 0.18 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1525 | 1256 |
| transcript | 1390 | 1146 |
| exon | 555 | 312 |
| intron | 92 | 56 |
| description: | ||
| protein length (aa) | 463 | 382 |
| exons per gene | 2.50 | 2 |
| # of gene models | 11799 |
Collaborators
-
Richard Oliver, Curtin University, Australia
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ellwood SR, Liu Z, Syme RA, Lai Z, Hane JK, Keiper F, Moffat CS, Oliver RP, Friesen TL
A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres.
Genome Biol. 2010;11(11):R109. doi: 10.1186/gb-2010-11-11-r109
Ellwood SR, Liu Z, Syme RA, Lai Z, Hane JK, Keiper F, Moffat CS, Oliver RP, Friesen TL
A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres.
Genome Biol. 2010;11(11):R109. doi: 10.1186/gb-2010-11-11-r109
Links
Funding
This project was not sequenced at the JGI.
