Aspergillus terreus metabolic model
Sara Calhoun
Generated September 9, 2020

Aspergillus terreus metabolic modeling and genome analysis

Here, we share imported datasets to enable analyses in KBase narratives. We've imported the published metabolic model of Aspergillus terreus strain NIH2624, which was built, manually curated, and validated by Liu et al. (2013). The Aspergillus terreus strain NIH2624 genome was retrieved from NCBI RefSeq (GCF_000149615.1) and was sequenced by the Broad Institute.

Furthermore, genome analysis tools and datasets can be accessed at the MycoCosm portal page: https://mycocosm.jgi.doe.gov/Aspte1

References:

  • Liu J, Gao Q, Xu N, Liu L. Genome-scale reconstruction and in silico analysis of Aspergillus terreus metabolism. Mol Biosyst. 2013;9(7):1939-1948. doi:10.1039/c3mb70090a

Metabolic model of Aspergillus terreus

iJL1454_KBase2
v5 - KBaseFBA.FBAModel-11.0
The viewer for the data in this Cell is available at the original Narrative here: https://narrative.kbase.us/narrative/70451

Flux balance analysis run on the Aspergillus terreus metabolic model

Run Flux Balance Analysis
Use flux balance analysis to predict metabolic fluxes in a metabolic model of an organism grown on a given media.
This app is still in progress.
No output found.

Aspergillus terreus genome imported into KBase

GCF_000149615.1
v1 - KBaseGenomes.Genome-8.2
The viewer for the data in this Cell is available at the original Narrative here: https://narrative.kbase.us/narrative/70451

Species tree

Insert Genome Into SpeciesTree - v2.2.0
Add one or more Genomes to a KBase SpeciesTree.
This app is still in progress.
No output found.

Apps

  1. Insert Genome Into SpeciesTree - v2.2.0
    • Price MN, Dehal PS, Arkin AP. FastTree 2 Approximately Maximum-Likelihood Trees for Large Alignments. PLoS One. 2010;5. doi:10.1371/journal.pone.0009490
  2. Run Flux Balance Analysis
    • Henry CS, DeJongh M, Best AA, Frybarger PM, Linsay B, Stevens RL. High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol. 2010;28: 977 982. doi:10.1038/nbt.1672
    • Orth JD, Thiele I, Palsson B . What is flux balance analysis? Nature Biotechnology. 2010;28: 245 248. doi:10.1038/nbt.1614