In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories

Gruchattka, Evamaria; Hädicke, Oliver; Klamt, Steffen; Schütz, Verena; Kayser, Oliver

doi:10.1186/1475-2859-12-84

Microbial Cell Factories

Table 1 Overview of in silico computations: number of elementary modes (EMs) and maximal IPP and biomass carbon yields on different carbon sources [C-mol/C-mol] for computations for E. coli and S. cerevisiae

From: In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories

Organism	Carbon source	Characteristics	EMs	Max IPP yield at zero growth	Max IPP yield with growth	Max biomass carbon yield
E. coli	Glucose	Wild type	36,590	0.67	0.57	0.85
E. coli	Glucose	Wild type, anaerobic	8,343	0.48	0.41	0.35
E. coli	Glucose	ATP source	48,603	0.71	0.57	0.99
E. coli	Glucose	NADH source	45,570	0.83	0.57	0.99
E. coli	Glucose	NADPH source	44,842	0.83	0.57	0.99
E. coli	Glucose	GAP-DH (NADP⁺)	74,651	0.71	0.62	0.99
E. coli	Glucose	MVA only	35,968	0.56	0.54	0.85
E. coli	Glucose	MVA + DXP	44,850	0.67	0.59	0.85
E. coli	Glycerol	Wild type	26,160	0.78	0.77	0.99
E. coli	Glycerol	ATP source	29,088	0.83	0.77	0.99
E. coli	Glycerol	NADH source	29,126	0.83	0.77	0.99
E. coli	Glycerol	NADPH source	28,252	0.83	0.77	0.99
E. coli	Glycerol	GAP-DH (NADP⁺)	62,665	0.83	0.77	0.99
E. coli	Glycerol	MVA only	22,225	0.56	0.45	0.99
E. coli	Glycerol	MVA + DXP	28,326	0.78	0.77	0.99
S. cerevisiae	Glucose	Wild type	9,844	0.53	0.39	0.80
S. cerevisiae	Glucose	Wild type, anaerobic	495	0.10	0.09	0.21
S. cerevisiae	Glucose	ATP source	15,326	0.56	0.39	0.89
S. cerevisiae	Glucose	NADH source	12,080	0.56	0.39	0.89
S. cerevisiae	Glucose	PDH	17,943	0.56	0.51	0.81
S. cerevisiae	Glucose	Mitochondrial MVA only	10,232	0.56	0.51	0.80
S. cerevisiae	Glucose	Mitochondrial + cytosolic MVA	128,427	0.56	0.53	0.82
S. cerevisiae	Glucose	ACL	17,155	0.55	0.39	0.80
S. cerevisiae	Glucose	DXP only	8,865	0.64	0.57	0.80
S. cerevisiae	Glucose	DXP + MVA	11,738	0.64	0.57	0.80
S. cerevisiae	Glucose	DXP + ATP source	13,731	0.66	0.57	0.89
S. cerevisiae	Glucose	DXP + NADH source	10,714	0.66	0.57	0.89
S. cerevisiae	Glucose	DXP + NADPH source	16,754	0.80	0.57	0.89
S. cerevisiae	Glucose	DXP + TH	25,254	0.67	0.57	0.81
S. cerevisiae	Glucose	DXP + GAP-DH (NADP⁺)	28,383	0.67	0.57	0.81
S. cerevisiae	Galactose	Wild type	9,844	0.53	0.39	0.80
S. cerevisiae	Fructose	Wild type	9,844	0.53	0.39	0.80
S. cerevisiae	Xylose	XI	6,330	0.53	0.39	0.80
S. cerevisiae	Xylose	XR-XDH	16,911	0.53	0.51	0.80
S. cerevisiae	Xylose	XI + DXP only	7,364	0.64	0.42	0.80
S. cerevisiae	Xylose	XI + DXP + MVA	9,088	0.64	0.44	0.80
S. cerevisiae	Xylose	XR-XDH + DXP only	16,513	0.64	0.42	0.80
S. cerevisiae	Xylose	XR-XDH + DXP + MVA	20,337	0.64	0.51	0.80
S. cerevisiae	Glycerol	Wild type	2,648,133	0.56	0.47	0.87
S. cerevisiae	Glycerol	Wild type w/o glyoxylate cycle	5,377	0.56	0.35	0.87
S. cerevisiae	Glycerol	DXP only	2,401,411	0.67	0.60	0.87
S. cerevisiae	Glycerol	DXP + MVA	4,038,007	0.67	0.60	0.87
S. cerevisiae	Glycerol	DXP + NADPH source	3,735,984	0.83	0.80	0.94
S. cerevisiae	Glycerol	DXP + GAP-DH (NADP⁺)	6,153,971	0.76	0.63	0.90
S. cerevisiae	Ethanol	Wild type	2,874,235	0.68	0.59	0.78
S. cerevisiae	Ethanol	ATP source	3,559,725	0.83	0.59	0.81
S. cerevisiae	Ethanol	NADH source	3,635,994	0.83	0.62	0.81
S. cerevisiae	Ethanol	DXP only	2,846,217	0.63	0.57	0.78
S. cerevisiae	Ethanol	DXP + MVA	3,133,493	0.68	0.59	0.78

GAP-DH (NADP⁺) = NADP⁺-dependent glyceraldehyde-3-phosphate dehydrogenase; PDH = cytosolic pyruvate dehydrogenase complex; ACL = ATP-citrate-lyase; TH = soluble and energy-independent transhydrogenase; XI = xylose isomerase pathway; XR-XDH = xylose reductase and xylitol dehydrogenase pathway.

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ISSN: 1475-2859

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