Identification of critical connectors in the directed reaction-centric graphs of microbial metabolic networks

BMC Bioinformatics

Table 5 Cascade sets with the highest cascade number in the reaction-centric metabolic network of E. coli

Leading cascade reaction (Cascade number)	Cascade set	Subsystem (function)	Subnetwork type^a	Flux^b	Essentiality^c
MECDPDH5 (7)	DMPPS, IPDPS, OCTDPS, UDCPDPS, DMATT, IPDDI, GRTT	Cofactor and prosthetic group biosynthesis (Connecting Isoprenoid and ubiquinol)	Other	0.002	T
ASAD (7)	THRAi, THRD, THRD_L, HSDy, THRS, HSK, THRTRS	Threonine and lysine metabolism (Junction of lysine and threonine branches)	Tree	−1.050	T
GTPCI (7)	CPH4S, CDGS, DHPTPE, CCGS, CDGR, DNMPPA, DNTPPA	Cofactor and prosthetic group biosynthesis (Folate synthesis and producing ‘glycit’)	Tree	0.002	T
GLUTRS (7)	GLUTRR, G1SAT, PPBNGS, HMBS, UPP3S, UPPDC1, CPPPGO	Cofactor and prosthetic group biosynthesis (Importing glu-L to synthesize hemeO biosynthesis)	Linear path	0.004	T

Abbreviations can be found in BiGG database (http://bigg.ucsd.edu/)
^aDrawn for the leading cascade reaction and its cascade set reactions; All the subnetwork are acyclic subnetworks classified into three types: tree, linear path, and other (neither linear path nor tree)
^bMetabolic flux value from FBA of wild-type E. coli (mmol/gDCW/h)
^cEssentiality of a reaction predicted from the reaction deletion simulation

ISSN: 1471-2105