Status
This genome was sequenced by Abraham Morales-Cruz, Dario Cantu
et al in the Department of Viticulture and Enology, University of
California Davis
Distinctive
expansion of gene families associated with plant cell wall
degradation, secondary metabolism, and nutrient uptake in the
genomes of grapevine trunk pathogens.
Summary statistics for the Diaporthe ampelina UCDDA912
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 47.33 |
| Sequencing read coverage depth | 50x |
| # of contigs | 2872 |
| # of scaffolds | 2383 |
| # of scaffolds >= 2Kbp | 777 |
| Scaffold N50 | 103 |
| Scaffold L50 (Mbp) | 0.13 |
| # of gaps | 489 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.87, 0.54, 0.43 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1536 | 1303 |
| transcript | 1327 | 1125 |
| exon | 477 | 270 |
| intron | 119 | 78 |
| description: | ||
| protein length (aa) | 442 | 375 |
| exons per gene | 2.78 | 2 |
| # of gene models | 10704 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Morales-Cruz A, Amrine KC, Blanco-Ulate B, Lawrence DP, Travadon R, Rolshausen PE, Baumgartner K, Cantu D
Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens.
BMC Genomics. 2015 Jun 19;16():469. doi: 10.1186/s12864-015-1624-z
Morales-Cruz A, Amrine KC, Blanco-Ulate B, Lawrence DP, Travadon R, Rolshausen PE, Baumgartner K, Cantu D
Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens.
BMC Genomics. 2015 Jun 19;16():469. doi: 10.1186/s12864-015-1624-z
Funding
This project was not sequenced at the JGI.
