publication todos wetlab

[famosab]

We want to publish all the models in combination with refineGEMs and the corresponding drylab results. This issue serves as ToDo-list and overview on what has been done.

[famosab]

• [x] first draft
• [x] send draft to Laura for feedback
• [x] make todos out of Lauras feedback
• [x] transfer draft to word for easier collaboration with Laura / Simon / Libera

[famosab]

• [x] clear comments in Introduction
• [x] media composition table for methods
• [x] make supplementary section for extended tables and more plate pictures
• [x] reformulate titles to results in result section
• [x] decide on strain naming (research fdaargos vs dsm)
• [x] create big table with simulation vs results
• [x] clearly dicuss what doubling times mean (when they overlap)
• [x] new figures for fits
• [x] remove discussion about conventional method and log-lin vs lin-lin

[famosab]

The identification of C. striatum from clinical specimens requires a high index of suspicion since colonies resemble coagulase-negative staphylococci and may be discarded as commensals. Further, species identification of diphtheroids is important since some of these are now recognized as potential pathogens. Identification of C. striatum has presented a problem, particularly for resource-poor settings because conventional phenotypic tests are time-consuming and insufficiently discriminative. (shariffCorynebacteriumStriatumEmerging2018)

This might be interesting to put into the Introduction to show how important metabolic knowledge is. We would need another publication that showcases how metabolic models are used for identification purposes though.