Biomass composition

Range Table - link
Organism Bacteria Mycoplasma pneumoniae
Reference Wodke JA et al., Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling. Mol Syst Biol. 2013 9: 653. doi: 10.1038/msb.2013.6 p.3 table IPubMed ID23549481
Primary Source (a) Maier T et al., (2011) Quantification of mRNA and protein and integration with protein turnover in a bacterium. Mol Syst Biol 7: 511 doi: 10.1038/msb.2011.38 (b) Amin N, Peterkofsky A. A dual mechanism for regulating cAMP levels in Escherichia coli. J Biol Chem. 1995 May 19 270(20):11803-5 AND Neidhardt FC (1996) Escherichia coli and Salmonella: Cellular and Molecular Biology. Washington, DC, ASM PressPubMed ID21772259, 7744829
Method P.3 left column bottom paragraph: "To be able to predict metabolic flux distributions and to simulate cell growth with FBA [Flux Balance Analysis], an accurate, quantitative representation of the biomass composition of an average M. pneumoniae cell is required. Therefore, experimental data on DNA content, RNA composition, and protein abundances were considered (Table I, Supplementary information) (Güell et al, 2009, 2011, Maier et al, 2011). For all three classes of macromolecules, [investigators] defined an artificial molecule reflecting their average cellular composition (Supplementary information). To accurately represent the composition of the cell membrane in [their] model, [they] experimentally analyzed the fatty acid profile of M. pneumoniae and quantified the fatty acid composition of the cytosol, the surrounding growth medium, as well as the cytoplasmic membrane directly (Supplementary Figure S3, Supplementary information). [They] found predominantly fatty acid chains of 16 and 18 carbons length in both the membrane and the cytoplasm (Supplementary Figure S3A). Based on [their] results, [they] designed an artificial molecule representing the average fatty acid composition to describe lipids in the M. pneumoniae biomass equation (Supplementary information). To account for the experimentally shown essentiality of vitamins and other cofactors, such as FAD, NAD+/NADH or folate (Yus et al, 2009), the end products of the secondary metabolism pathways were included into the biomass qualitatively, that is, in small arbitrary quantities, since a sensitivity analysis showed that a 10‐fold change in cofactor amounts does not significantly influence on the growth rate (Supplementary Figure S4 Supplementary Table S4, Supplementary information). Other cofactors, for example organic phosphate, were included based on the literature information (Table I, Supplementary information)." Kindly see right-most column in table
Entered by Uri M
ID 115485