Primary assimilation processes in the methylotrophic network

Range Table - link
Organism Methylobacterium extorquens
Reference Peyraud R, Schneider K, Kiefer P, Massou S, Vorholt JA, Portais JC. Genome-scale reconstruction and system level investigation of the metabolic network of Methylobacterium extorquens AM1. BMC Syst Biol. 2011 Nov 10 5: 189. doi: 10.1186/1752-0509-5-189 p.9 table 4PubMed ID22074569
Method P.3 left column bottom paragraph: "The genome-scale (GS) metabolic network of M. extorquens AM1 was reconstructed according to previously established guidelines [ref 21]. The details of the process are given in material and methods and are schematically shown in Additional file 1 link . Briefly, the GS metabolic network was obtained by integrating relevant information collected from i) genome annotation [ref 20], ii) published physiological, genetic and biochemical studies in M. extorquens AM1 and closely related organisms iii) biochemical information contained in databases [refs 22, 23, 24], vi) complementary investigations (biomass quantification), and intensive refinement (Additional file 2, 3). The chemical composition of M. extorquens AM1 cell was determined experimentally or taken from available literature (Table 1 and Additional file 4) and used to define the biosynthetic needs and corresponding pathways."
Comments P.8 left column bottom paragraph: "The consequences of the particular organization of primary C1 assimilation in M. extorquens AM1 were analyzed by examining the processes allowing the conversion of methanol into each of the 13 key carbon precursors, including C1 (Me-THF), C2 (acetyl-CoA, glycine), C3 (L-serine, pyruvate, PEP, glyceraldehyde-3-phosphate), C4 (OAA, D-erythrose-4-phosphate (E4P), 3HBCOA), C5 (α-ketoglutarate, D-ribose-5-phosphate) and C6 (D-glucose-6-phosphate (G6P)). The number of EFMs ranged from 2018 to 6576 for the various carbon precursors (Table 4, Additional file 8). The serine cycle was involved in all assimilatory EFMs except for Me-THF, which can be also generated directly in the C1 pathways." EFM=Elementary Flux Mode. EMCP=ethylmalonyl-CoA pathway
Entered by Uri M
ID 114583