Genomic sequencing, genome-scale metabolic network reconstruction, and in silico flux analysis of the grape endophytic fungus Alternaria sp. MG1

Table 3 Qualitative and quantitative validation of iYL1539

Substrates	In vivo	In silico	References
Prediction of growth phenotypes of Alternaria sp. MG1 on different carbon and nitrogen sources
Carbon sources
Glucose	+	+	[24]
Fructose	+	+	[24]
Galactose	+	+	[86]
Lactose	+	+	[24]
Maltose	+	+	[86]
Mannose	+	+	[86]
Pectin	+	−	[86]
Ribose	+	+	[86]
Starch*	+	+	[24]
Sucrose*	+	+	[24]
Xylose	+	+	[86]
Arabinose	+	+	[38]
Rhamnose*	+	+	[38]
Raffinose	+	+	[38]
Glycerol	+	+	[87]
Dextrin*	+	+	[24]
Citrate	+	−	[87]
Polygalacturonic acid	+	−	[88]
Cellobiose	+	+	[89]
Sorbose	+	+	[89]
Nitrogen sources
NH₄Cl	+	+	[24]
KNO₃	+	+	[24]
NaNO₂	+	+	[86]
Acetamide	+	−	[38]
Urea	+	+	[24]
Glycine	+	+	[89]
Glutamate	+	+	[89]
Arginine	+	+	[89]
Alanine	+	+	[89]
Aspartate	+	+	[89]
Asparagine	+	+	[89]
Tyrosine	+	+	[89]

Comparison of in silico and in vivo growth rates
Constraints (mmol/gDW/h)		Growth rate (h⁻¹)
Consumption rate	RES synthesis rate	In vivo	In silico
Glc (v = 1.65)	8.36E−6	0.1000	0.1013
Suc (v = 0.73)	1.50E−6	0.0893	0.0885

Glc glucose, Suc sucrose, RES resveratrol
+ for growth/− for non-growth; * represents Alternaria sp. MG1 can utilize after filling gaps

ISSN: 1475-2859