Status
Mar 2014. The Aspergillus niger NRRL3 genome was sequenced not by JGI, but by Adrian Tsang's lab at Concordia University. The NRRL3 genome was assembled to 15 conigs with seven gaps corresponding to seven of the eight putative centromeres, all 16 telomeres were assembled. Strain NRRL3 is near identical to ATCC1015 with fewer than 20 SNPs between them.
Summary statistics for the Aspergillus niger NRRL3 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 35.25 |
| Sequencing read coverage depth | 10x |
| # of contigs | 15 |
| # of scaffolds | 15 |
| # of scaffolds >= 2Kbp | 15 |
| Scaffold N50 | 5 |
| Scaffold L50 (Mbp) | 2.81 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 4.30, 3.78, 3.76 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1657 | 1417 |
| transcript | 1500 | 1266 |
| exon | 464 | 244 |
| intron | 72 | 62 |
| description: | ||
| protein length (aa) | 500 | 422 |
| exons per gene | 3.23 | 3 |
| # of gene models | 11846 |
Collaborators
Adrian Tsang, Department of Biology, Concordia University.
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Vesth TC, Nybo JL, Theobald S, Frisvad JC, Larsen TO, Nielsen KF, Hoof JB, Brandl J, Salamov A, Riley R, Gladden JM, Phatale P, Nielsen MT, Lyhne EK, Kogle ME, Strasser K, McDonnell E, Barry K, Clum A, Chen C, LaButti K, Haridas S, Nolan M, Sandor L, Kuo A, Lipzen A, Hainaut M, Drula E, Tsang A, Magnuson JK, Henrissat B, Wiebenga A, Simmons BA, Mäkelä MR, de Vries RP, Grigoriev IV, Mortensen UH, Baker SE, Andersen MR
Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri.
Nat Genet. 2018 Dec;50(12):1688-1695. doi: 10.1038/s41588-018-0246-1
Aguilar-Pontes MV, Brandl J, McDonnell E, Strasser K, Nguyen TTM, Riley R, Mondo S, Salamov A, Nybo JL, Vesth TC, Grigoriev IV, Andersen MR, Tsang A, de Vries RP
The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi.
Stud Mycol. 2018 Sep;91():61-78. doi: 10.1016/j.simyco.2018.10.001
Vesth TC, Nybo JL, Theobald S, Frisvad JC, Larsen TO, Nielsen KF, Hoof JB, Brandl J, Salamov A, Riley R, Gladden JM, Phatale P, Nielsen MT, Lyhne EK, Kogle ME, Strasser K, McDonnell E, Barry K, Clum A, Chen C, LaButti K, Haridas S, Nolan M, Sandor L, Kuo A, Lipzen A, Hainaut M, Drula E, Tsang A, Magnuson JK, Henrissat B, Wiebenga A, Simmons BA, Mäkelä MR, de Vries RP, Grigoriev IV, Mortensen UH, Baker SE, Andersen MR
Investigation of inter- and intraspecies variation through genome sequencing of Aspergillus section Nigri.
Nat Genet. 2018 Dec;50(12):1688-1695. doi: 10.1038/s41588-018-0246-1
Aguilar-Pontes MV, Brandl J, McDonnell E, Strasser K, Nguyen TTM, Riley R, Mondo S, Salamov A, Nybo JL, Vesth TC, Grigoriev IV, Andersen MR, Tsang A, de Vries RP
The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi.
Stud Mycol. 2018 Sep;91():61-78. doi: 10.1016/j.simyco.2018.10.001
Links
Adrian Tsang's lab at Concordia University.
Eurotiomycetes group page on MycoCosm.
Funding
This project was not sequenced at the JGI.
