PMC:4301621 / 15131-16529
Annnotations
{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/4301621","sourcedb":"PMC","sourceid":"4301621","source_url":"https://www.ncbi.nlm.nih.gov/pmc/4301621","text":"FBA with constraints was used to investigate the metabolic properties of model iCY1106. YE medium was used to simulate the growth rate and ARA production, the maximum uptake rate of all 20 amino acids were set at 0.01 mmol gDW−1 h-1 [26], and the glucose consumption rate was set at 0.8 mmol gDW−1 h-1 [8], and 2.0 mmol gDW−1 h-1 [1] respectively, and the in silico growth rate were closed to experimental values (differences were only 0.8% and 9.48%; Table 3). To investigate ARA production in silico, the growth rate was fixed at 0.03 h-1 [8], and the ARA exchange reaction was set as the objective function. Under these conditions, the ARA rate was 0.128 mmol gDW−1 h−1 by FBA. This in silico value was lower than the experimentally determined value of 0.149 mmol gDW−1 h−1 (14.09%) [8], and this may due to the use of two different M. alpina strains (ATCC 32222 and ME-1) for modeling and experimental components, with ME-1 being the higher ARA producing strain [27]. Furthermore, the difficulties associated with accurately modeling the yeast extract may have resulted in a nutritional deficiency in the model.\nTable 3 Comparison of in silico and in vivo growth rates of M . alpina\nMedia condition (mmol gDW −1 h −1 ) Growth rate (h −1 ) Ref.\nin vivo in silico\nGlc (v = 0.8) 0.0696 0.0690 [8]\nGlc (v = 2.0) 0.1708 0.1546 [1]\nin vivo: experimental results; in silico: simulation results.\n","divisions":[{"label":"label","span":{"begin":1116,"end":1123}},{"label":"caption","span":{"begin":1124,"end":1188}},{"label":"p","span":{"begin":1124,"end":1188}},{"label":"table","span":{"begin":1189,"end":1335}},{"label":"tr","span":{"begin":1189,"end":1252}},{"label":"th","span":{"begin":1189,"end":1226}},{"label":"th","span":{"begin":1226,"end":1246}},{"label":"th","span":{"begin":1247,"end":1252}},{"label":"tr","span":{"begin":1253,"end":1271}},{"label":"th","span":{"begin":1253,"end":1261}},{"label":"th","span":{"begin":1261,"end":1271}},{"label":"tr","span":{"begin":1272,"end":1303}},{"label":"td","span":{"begin":1272,"end":1285}},{"label":"td","span":{"begin":1286,"end":1292}},{"label":"td","span":{"begin":1293,"end":1299}},{"label":"td","span":{"begin":1300,"end":1303}},{"label":"tr","span":{"begin":1304,"end":1335}},{"label":"td","span":{"begin":1304,"end":1317}},{"label":"td","span":{"begin":1318,"end":1324}},{"label":"td","span":{"begin":1325,"end":1331}},{"label":"td","span":{"begin":1332,"end":1335}}],"tracks":[{"project":"2_test","denotations":[{"id":"25582171-22124721-14905484","span":{"begin":234,"end":236},"obj":"22124721"},{"id":"25582171-17439233-14905485","span":{"begin":331,"end":332},"obj":"17439233"},{"id":"25582171-17439233-14905486","span":{"begin":1333,"end":1334},"obj":"17439233"}],"attributes":[{"subj":"25582171-22124721-14905484","pred":"source","obj":"2_test"},{"subj":"25582171-17439233-14905485","pred":"source","obj":"2_test"},{"subj":"25582171-17439233-14905486","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#93ecc7","default":true}]}]}}