Status
v2.0 (June 2011): This Acremonium alcalophilum finished genome sequence assembly v2.0 was improved over the v1.0 assembly using primer walking and manual checking using phred/phrap/consed. all detectable errors and misassemblies have been corrected where possible. The nuclear genome sequence from this draft assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses. Multiple ESTs sequencing technologies and EST cluster data sets were tested for gene modeling with this genome; the combined 454 and Illumina EST Clusters ("cap3_all", in the table below) was found best and used in gene modeling.
Summary statistics for the Acremonium alcalophilum v2.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 54.42 |
| Sequencing read coverage depth | Finished |
| # of contigs | 286 |
| # of scaffolds | 13 |
| # of scaffolds >= 2Kbp | 13 |
| Scaffold N50 | 3 |
| Scaffold L50 (Mbp) | 7.20 |
| # of gaps | 273 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 11.07, 9.10, 7.20 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | Acral1_EstClusters_cap3_all.fa | 16004 | 12079 | 75.5% |
| Gene Models | FilteredModels3_1 | |
| length (bp) of: | average | median |
| gene | 1958 | 1581 |
| transcript | 1584 | 1333 |
| exon | 424 | 164 |
| intron | 139 | 70 |
| description: | ||
| protein length (aa) | 456 | 370 |
| exons per gene | 3.74 | 3 |
| # of gene models | 9521 |
Collaborators
- Adrian Tsang, Concordia University, Montreal, Canada
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Steindorff AS, Aguilar-Pontes MV, Robinson AJ, Andreopoulos B, LaButti K, Kuo A, Mondo S, Riley R, Otillar R, Haridas S, Lipzen A, Grimwood J, Schmutz J, Clum A, Reid ID, Moisan MC, Butler G, Nguyen TTM, Dewar K, Conant G, Drula E, Henrissat B, Hansel C, Singer S, Hutchinson MI, de Vries RP, Natvig DO, Powell AJ, Tsang A, Grigoriev IV
Comparative genomic analysis of thermophilic fungi reveals convergent evolutionary adaptations and gene losses.
Commun Biol. 2024 Sep 12;7(1):1124. doi: 10.1038/s42003-024-06681-w
Steindorff AS, Aguilar-Pontes MV, Robinson AJ, Andreopoulos B, LaButti K, Kuo A, Mondo S, Riley R, Otillar R, Haridas S, Lipzen A, Grimwood J, Schmutz J, Clum A, Reid ID, Moisan MC, Butler G, Nguyen TTM, Dewar K, Conant G, Drula E, Henrissat B, Hansel C, Singer S, Hutchinson MI, de Vries RP, Natvig DO, Powell AJ, Tsang A, Grigoriev IV
Comparative genomic analysis of thermophilic fungi reveals convergent evolutionary adaptations and gene losses.
Commun Biol. 2024 Sep 12;7(1):1124. doi: 10.1038/s42003-024-06681-w
Funding
The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.
