Table 17 Conflicts between EcoCyc–18.0–GEM growth predictions and experimental sulfur source utilization data for aerobic growth on Biolog PM plates at 37°C
From: A genome-scale metabolic flux model of Escherichia coli K–12 derived from the EcoCyc database
Sulfur source | HT | Sim | Comments |
|---|---|---|---|
L-methionine | + | – | Methionine and related compounds enable respiration in Biolog PM assays when supplied as a sulfur |
D-methionine | + | – | source. A route of catabolism is not present in EcoCyc, and methionine is not considered to support sulfur |
N-acetyl-DL-methionine | + | – | requirements in E. coli[179]. This result suggests further investigation. |
Gly-Met | + | – | |
L-cystathionine | + | – | |
L-methionine S-oxide | + | – | |
L-cysteine | + | – | L/D-cysteine lack clear pathways of uptake in EcoCyc–18.0–GEM. This problem will be a subject of future |
D-cysteine | + | – | EcoCyc development. |
Thiophosphate | + | – | PhoA activity on thiophosphate will be added in future versions of EcoCyc. |
Djenkolate | + | – | The route of uptake is unknown. Catabolism may proceed via MetC [180]. |
Lanthionine | + | – | |
3-sulfinoalanine | + | – | The route of uptake is unknown. SufS and CsdA can convert 3-sulfinoalanine to alanine and sulfite. |
Cysteamine | + | – | Routes of uptake and catabolism for cysteamine, dithiophosphate, hypotaurine, tetrathionate, and |
Dithiophosphate | + | – | thiourea are unknown. |
Hypotaurine | + | – | |
Tetrathionate | + | – | |
Thiourea | + | – |