Apply SLIMEr to YALI

[ChristianLieven]

What would a model of an oleaginous yeast be without a proper fatty acid metabolism?

If this isn't already implemented, I'd very much like to try and apply this!

Edited by @edkerk:

• Define what acyl-chains can be found at each position of every lipid (infer from experimental data)
• Convert generic lipid metabolic reactions to chain-specific reactions
• Include SLIME reactions

[edkerk]

This would indeed be very interesting to do. When constructing the Yali-model using the yeast-GEM 7.6 as template, lipid metabolism was described in a more simplified way (using the 'restrictive approach' mentioned in Fig 1 of the SLIMEr paper). When introducing SLIMEr, these generalized reactions should be swapped for the original reactions that are specific for each chain length. To help with this, many of the reactions starting with y10xxxx are 'generalized' versions of yeast-GEM reactions (with IDs r_xxxx).