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Extension to different growth media and/or organisms

MM Matteo Mori
TH Terence Hwa
OM Olivier C. Martin
AM Andrea De Martino
EM Enzo Marinari
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Besides the full study of the E. coli iJR904 model, we have tested CAFBA on the more recent reconstructions iAF1260 [58] and iJO1366 [59], obtaining very similar results. COBRA-compatible Matlab functions [74] to run CAFBA on these models are provided as S1 Code. Note C in S1 Text describes in detail how to port CAFBA to different growth media, nutrient limitations and/or bacterial species. However, provided the input coming from empirical growth laws is available together with the network structure and the biomass composition, the CAFBA framework can in principle be extended to growth-maximizing organisms other than bacteria.

Copyright and License information:  ©2016 Mori et al
This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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