Incorporation of DNA chip technology to the simulation and validation of flux analysis in yeast diauxic growth.
We incorporated gene expression information from cDNA microarray into flux analysis to simulate yeast diauxic growth. Expression ratios of both growth phases were applied to assign the split ratio at glyoxylate shunt during simulation, in which the equation was mathematically unsolvable due to the singularity and artificial split ratios, which were traditionally introduced without biological evidence. In addition, the directionality of microarray dataset was used as a further constraint during simulation. Metabolic fluxes obtained by this modified approach are in general consistent with microarray analysis. However, discrepancies occurred when the quantity of fluxes was compared, probably due to the substantial reduction of substrates at phase II in which the increase in the enzymatic levels was not proportional to the increase of substrate flow, as would be predicted from microarray dataset. The modified flux analysis might have brought a new approach to investigate other cellular pathways.
Huang
Guewha Steven
GS
Institute of Chinese Pharmaceutical Sciences, China Medical College, 91 Hsueh-Shih Road, 404, Taichung, Taiwan, ROC. shuang@mail.cmc.edu.tw
Hong
Meng-Yen
MY
Liu
Yung-Chuan
YC
D000465:Algorithms; D018076:DNA, Complementary / Q000235:genetics*; D004271:DNA, Fungal / Q000235:genetics*; D003627:Data Interpretation, Statistical; D015966:Gene Expression Regulation, Fungal / Q000235:genetics; D006038:Glyoxylates / Q000378:metabolism; D020411:Oligonucleotide Array Sequence Analysis; D015203:Reproducibility of Results; D013268:Stimulation, Chemical; D015003:Yeasts / Q000201:enzymology / Q000235:genetics* / Q000254:growth & development*
D018076:DNA, Complementary; D004271:DNA, Fungal; D006038:Glyoxylates