The Gene Index for Mycobacterium tuberculosis H37Rv was downloaded from The Institute for Genomic Research (TIGR) . Reconstruction content was defined based on the sequence annotation, legacy data, the Tuberculist database , ancillary sources such as the Kyoto Encyclopedia of Genes and Genomes (KEGG), and SEED . Reactions were defined and according to the Tuberculist web and KEGG. Legacy data was also used in the process of building the model from the reconstruction. The manual curation aspects of the reconstruction are outlined above and discussed in further detail in . Debugging was started once the first draft of the reconstruction was completed and functional testing (i.e. flux balance analysis calculations, etc.) were begun.