Genome-Scale Metabolic Modeling of Archaea Lends Insight into Diversity of Metabolic Function

Table 3

Biomass Compositions and Energy Requirements. Molar composition of each Archaea’s biomass for nuclei and amino acids. Additionally, energy requirements for growth and persistence.

	iOG490/iOG478	iVS941	iMB745//iST807	iAF692	iMG746	iJH428	iMM518	iMsi385
dAMP	0.0025	0.0360	0.0234	0.0331	0.0327	0.0232	0.0370	0.0331	0.027	NA
dCMP	0.0049	0.0234	0.0175	0.0215	0.0212	0.0176	0.0196	0.0215	0.016	NA
dGMP	0.0025	0.0234	0.0175	0.0215	0.0212	0.0176	0.0173	0.0215	0.016	NA
dTMP	0.0051	0.0360	0.0237	0.0331	0.0327	0.0236	0.0376	0.0231	0.027	NA
AMP	0.0618	0.0012	0.143	0.1846	0.1782	0.1152	0.1795	0.2222	0.155	NA
CMP	0.131	0.1637	0.115	0.1379	0.1361	0.1008	0.1780	0.1379	0.086	NA
GMP	0.131	0.2637	0.101	0.2222	0.2193	0.1200	0.1609	0.2222	0.086	NA
UMP	0.0619	0.1767	0.120	0.1489	0.1469	0.1440	0.1877	0.1489	0.155	NA
Ala	0.345 ± 0.08	0.5621	0.388	0.5621	0.5546	0.3906	0.5853	0.5621	0.557 ± 0.005	NA
Arg	0.211 ± 0.044	0.3237	0.253	0.3237	0.3194	0.2520	0.2805	0.3237	0.378 ± 0.022	NA
Asp	0.431 ± 0.094	0.2638	0.301	0.2638	0.2603	0.3024	0.2805	0.2638	0.913 ± 0.080	NA
Asn	0.099	0.2638	0.253	0.2638	0.2603	0.2520	0.2805	0.2638	NA	NA
Cys	0.033	0.1002	0.07	0.1002	0.0989	0.0693	0.0915	0.1002	0.056	NA
Glu	0.72 ± 0.22	0.288	0.450	0.2880	0.2842	0.4473	0.3170	0.288	1.074 ± 0.135	NA
Gln	0.125	0.288	0.143	0.2880	0.2842	0.1449	0.3170	0.288	NA	NA
Gly	0.29 ± 0.053	0.6704	0.408	0.6704	0.6615	0.4095	0.4695	0.6704	0.561 ± 0.049	NA
His	0.133 ± 0.026	0.1037	0.094	0.1037	0.1023	0.0945	0.0976	0.25	0.104 ± 0.009	NA
Ile	0.137 ± 0.031	0.3179	0.415	0.3179	0.3137	0.4158	0.2683	0.3179	0.272 ± 0.012	NA
Leu	0.251 ± 0.052	0.493	0.534	0.4930	0.4865	0.5355	0.5182	0.493	0.471 ± 0.029	NA
Lys	0.115 ± 0.023	0.3755	0.370	0.3755	0.3705	0.3717	0.3292	0.3755	0.219 ± 0.017	NA
Met	0.05	0.1682	0.132	0.1682	0.1660	0.1323	0.1341	0.1682	0.028 ± 0.012	NA
Phe	0.111 ± 0.022	0.2027	0.251	0.2027	0.2000	0.2520	0.1829	0.2027	0.242 ± 0.018	NA
Pro	0.111 ± 0.022	0.2419	0.225	0.2419	0.2387	0.2268	0.2073	0.2419	0.358 ± 0.034	NA
Pyl	NA	NA	NA/NA/0.0808	NA	NA	NA	NA	NA	NA	NA
Ser	0.22 ± 0.053	0.2361	0.390	0.2361	0.2330	0.3906	0.2683	0.2361	0.332 ± 0.016	NA
Thr	0.181 ± 0.036	0.2776	0.307	0.2776	0.2739	0.3087	0.2927	0.2776	0.415 ± 0.011	NA
Trp	0.052	0.0622	0.060	0.0622	0.0614	0.0567	0.0061	0.0622	0.076	NA
Tyr	0.048 ± 0.023	0.1509	0.210	0.1509	0.1489	0.2079	0.1585	0.1509	0.166 ± 0.028	NA
Val	0.25 ± 0.057	0.4631	0.387	0.4631	0.4570	0.3906	0.4085	0.4631	0.480 ± 0.061	NA
	NA	70.0	65.0	70.0	65.0	47.0	29.8	50		24.86
	2.0	1.75	2.5	1.75	2.0	0.6	0.4	NA		1.9

otherwise noted the units of the biomass coefficients are in units of mmol/gDCW. iMAC868 model adopted the iMB745 biomass expression verbatim. model was formulated in units of mol/OD-L. S. solfataricus paper does not detail the biomass components and the model was not available to query. Associated Maintenance (GAM) has units of mmol ATP/gDCW. growth Associated Maintenance (NGAM) has units of mmol ATP/gDCW/hr.