Status
Oct 2012 - The Aspergillus zonatus genome was sequenced using the Illumina platform, assembled with with AllPathsLG, and annotated with the JGI annotation pipeline and custom analyses.
Dec 2013 - WARNING - contamination from the bacterium S. aureus was detected and 1,476 models from the following scaffolds were demoted from the Gene Catalog:
scaffold_9
scaffold_16
scaffold_24
scaffold_23
scaffold_31
scaffold_32
scaffold_42
scaffold_46
scaffold_47
scaffold_56
scaffold_131
scaffold_136
scaffold_144
The resulting contamination-free track is GeneCatalog_2013_12_03_15_38. Gene models found on the above list of scaffolds should not be considered part of the Aspergillus zonatus genome.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 28.92 |
| Sequencing read coverage depth | 84.8 |
| # of contigs | 460 |
| # of scaffolds | 260 |
| # of scaffolds >= 2Kbp | 193 |
| Scaffold N50 | 8 |
| Scaffold L50 (Mbp) | 1.07 |
| # of gaps | 200 |
| % of scaffold length in gaps | 0.3% |
| Three largest Scaffolds (Mbp) | 3.52, 2.23, 1.95 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | EstClusters | 39703 | 36215 | 91.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1734 | 1456 |
| transcript | 1565 | 1322 |
| exon | 526 | 304 |
| intron | 87 | 65 |
| description: | ||
| protein length (aa) | 471 | 388 |
| exons per gene | 2.98 | 3 |
| # of gene models | 11362 |
Collaborators
Ronald de Vries, CBS Fungal Biodiversity Centre, Institute of the Royal Netherlands Academy of Arts and Sciences
Genome Reference(s)
de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M, Barry K, Battaglia E, Bayram Ö, Benocci T, Braus-Stromeyer SA, Caldana C, Cánovas D, Cerqueira GC, Chen F, Chen W, Choi C, Clum A, Dos Santos RA, Damásio AR, Diallinas G, Emri T, Fekete E, Flipphi M, Freyberg S, Gallo A, Gournas C, Habgood R, Hainaut M, Harispe ML, Henrissat B, Hildén KS, Hope R, Hossain A, Karabika E, Karaffa L, Karányi Z, Kraševec N, Kuo A, Kusch H, LaButti K, Lagendijk EL, Lapidus A, Levasseur A, Lindquist E, Lipzen A, Logrieco AF, MacCabe A, Mäkelä MR, Malavazi I, Melin P, Meyer V, Mielnichuk N, Miskei M, Molnár ÁP, Mulé G, Ngan CY, Orejas M, Orosz E, Ouedraogo JP, Overkamp KM, Park HS, Perrone G, Piumi F, Punt PJ, Ram AF, Ramón A, Rauscher S, Record E, Riaño-Pachón DM, Robert V, Röhrig J, Ruller R, Salamov A, Salih NS, Samson RA, Sándor E, Sanguinetti M, Schütze T, Sepčić K, Shelest E, Sherlock G, Sophianopoulou V, Squina FM, Sun H, Susca A, Todd RB, Tsang A, Unkles SE, van de Wiele N, van Rossen-Uffink D, Oliveira JV, Vesth TC, Visser J, Yu JH, Zhou M, Andersen MR, Archer DB, Baker SE, Benoit I, Brakhage AA, Braus GH, Fischer R, Frisvad JC, Goldman GH, Houbraken J, Oakley B, Pócsi I, Scazzocchio C, Seiboth B, vanKuyk PA, Wortman J, Dyer PS, Grigoriev IV
Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.
Genome Biol. 2017 Feb 14;18(1):28. doi: 10.1186/s13059-017-1151-0
Links
CBS Fungal Biodiversity Centre, Institute of the Royal Netherlands Academy of Arts and Sciences
