A gap-filling algorithm for prediction of metabolic interactions in microbial communities
Table 2
Comparison of the number of reactions added to the metabolic models used in the study after the application of the community gap-filling method and individual-organism gap-filling methods.
The metabolic models of the E. coli glucose utilizer, the E. coli acetate utilizer, the B. adolescentis ATCC 15703, the F. prausnitzii A2–165, the Dehalobacter sp. CF and the Bacteroidales sp. CF50 were gap-filled individually with the use of our community gap-filling algorithm for single organisms and with the function fastGapFill which is incorporated in CobraToolbox 3 and is a standard method for gap-filling of individual GSMMs.