Solving gap metabolites and blocked reactions in genome-scale models: application to the metabolic network of Blattabacterium cuenoti

Table 1 Description of UMs

UM	Related to subsystem	No. reactions	No. metabolites	RNP	RNC
1	Menaquinol Biosynthesis	23	21	Mev, 2ombzl	2ommbl
2	Nucleotide Salvage Pathway	22	15	-	Hxan, xan, r1p, 2dr1p, thym, ura
3	Pyridoxal 5-phosphate Biosynthesis	7	6	-	4hthr
4	Lipopolysaccharide Biosynthesis	4	4	-	u3hga
5	Siroheme Biosynthesis	4	4	-	uppg3
6	Arginine and Proline Metabolism	2	2	-	1pyr5c
7	Transport, Extracellular (Fe²⁺)	2	2	-	Fe²⁺
8	Transport, Extracellular (K⁺)	2	2	-	K⁺
9	Superoxide Dismutase	1	1	O₂^–	-
10	Acyl-Carrier Protein Synthase	1	1	apoACP	-
	Total	68	58	8	4

UM identified in B. cuenoti iCG238 GSM. Metabolite abbreviations: Mev (mevalonate), 2ombzl (2-Octaprenyl-6-methoxy-1,4-benzoquinol), 2ommbl (2-Octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol), hxan (Hypoxanthine), xan (Xanthine), r1p (Ribose-1-phosphate), 2dr1p (2-deoxy-D-Ribose-1-phosphate, thym (Thymine), ura (Uracil) 1pyr5c (1-Pyrroline-5-carboxylate), 4hthr (4-Hydroxy-L-threonine), u3hga (UDP-3-O-(3-hydroxytetradecanoyl)-D-glucosamine), uppg3 (Uroporphyrinogen), apoACP (apoprotein [acyl carrier protein]). The relation between an UM and a subsystem was established according to the most frequent subsystem associated to the reactions of the UM.

ISSN: 1752-0509