This is a public repo for 'Elucidation of trophic interactions in an unusual single-cell nitrogen-fixing symbiosis using metabolic modeling'
- GSMs: stores genome-scale metabolic models for UCYN-A and the host (SBML and JSON formats)
- data: stores input data for GAMS scripts
- results: stores GAMS outputs
- scripts:
- makeInputFiles.py: makes GAMS-readable input files from the
- MinimalMetTransfers_UCYNbiomass.gms: finds the least number of metabolites that must be transferred between the two organisms to produce all UCYN-A biomass precursors
- MinimalMetTransfers_UCYNbiomass_Icuts.gms: uses integer cuts to iteratively determine alternate inter-organism metabolite transfer sets to produce all UCYN-A biomass precursors
- MinimalMetTransfers_maxN2fix.gms: finds the least number of metabolites that must be transferred between the two organisms for maximal UCYN-A nitrogen fixation flux
- MinimalMetTransfers_maxHostBiomass.gms: finds the least number of metabolites that must be transferred between the two organisms for maximal host biomass production flux