IdentiCS – Identification of coding sequence and in silico reconstruction of the metabolic network directly from unannotated low-coverage bacterial genome sequence

Table 5 Distribution of the unique EC numbers of K. pneumoniae in different function categories compared to other organisms (see legend of Fig. 3 for name abbreviations of organisms). The EC numbers for K. pneumoniae were identified from the unannotated 7.9-fold coverage genome sequences by SWISS-PROT-TrEMBL based IdentiCS. The EC numbers for other organisms are taken from the KEGG genome annotations. The total number of strain-specific ECs is shown in parenthesis under the strain name.

Function Categories^a	ECs^b	KPN (735)	ECO (681)	STM (655)	STY (445)	PAO (573)	YPE (585)
Carbohydrate metabolism	427	151	154	147	101	105	123
Energy metabolism	167	60	62	62	46	61	58
Lipid metabolism	126	27	25	25	17	27	17
Nucleotide metabolism	166	83	82	80	45	66	72
Amino Acid metabolism	561	211	189	189	132	205	183
Other Amino Acids	146	49	45	43	26	47	41
Complex Carbohydrates	184	63	58	55	33	43	53
Complex Lipids metabolism	171	46	38	34	24	31	34
Cofactors and Vitamins	225	104	105	107	74	100	96
Sum of unique EC numbers	1899	567	537	529	349	464	476

^a: Functional categorization according to KEGG; ^b: unique EC numbers of corresponding metabolism category calculated from KEGG metabolic pathway maps.

ISSN: 1471-2105