Metabolic modeling and analysis of the metabolic switch in Streptomyces coelicolor

BMC Genomics

Table 2 List of anticorrelated genes

SCO ID	Definition	Pathway	r
SCO2286	alkaline phosphatase	folate biosynthesis	--0.80
SCO3249	[acyl-carrier-protein] S-malonyltransferase	fatty acid biosynthesis	--0.78
SCO5887	[acyl-carrier-protein] S-malonyltransferase	fatty acid biosynthesis	--0.75
SCO0386	asparagine synthetase (glutamine-hydrolysing)	aspartate metabolism	--0.75
SCO3248	pentadecanoyl-[acyl-carrier protein] synthesis	fatty acid biosynthesis	--0.74
SCO5886	pentadecanoyl-[acyl-carrier protein] synthesis	fatty acid biosynthesis	--0.71
SCO5888	pentadecanoyl-[acyl-carrier protein] synthesis	fatty acid biosynthesis	--0.70
SCO0828	alkaline phosphatase	folate biosynthesis	--0.67
SCO2068	alkaline phosphatase	folate biosynthesis	--0.66
SCO3246	pentadecanoyl-[acyl-carrier protein] synthesis	fatty acid biosynthesis	--0.63
SCO3595	D-alanine-D-alanine ligase	D-alanine metabolism	--0.63
SCO3221	prephenate dehydrogenase	tryptophan biosynthesis	--0.63
SCO6655	GTP cyclohydrolase II	riboflavin metabolism	--0.61
SCO6787	butyryl-CoA dehydrogenase	propanoate metabolism	--0.59
SCO2687	GTP cyclohydrolase II	riboflavin metabolism	--0.52

The most strongly anticorrelated genes are listed on the basis of correlation between gene expression and predicted flux (r < --0.25). Pathway annotations are based on the KEGG database without manual curation. Most of the genes belong to the pink or red cluster and are upregulated in stationary phase; these represent potential new genes involved in antibiotics biosynthesis. Several examples validating this interpretation are discussed in detail in the text.

ISSN: 1471-2164