Evaluation method for the potential functionome harbored in the genome and metagenome

BMC Genomics

Table 1 Classification of the KEGG modules based on the module completion ratio of 768 prokaryotes

Completion pattern	Definition of module type	Subtype	Pathways [203]		Structural complexes [263]		Functional sets[4]		Signatures[3]
			No. of modules (%)		No. of modules (%)		No. of modules (%)		No. of modules (%)
			Total	Rare	Total	Rare	Total	Rare	Total	Rare
A	Universal	A-1	15 (7.4)	0 (0)	9 (3.4)	0 (0)	1 (25)	0 (0)	0 (0)	0 (0)
		A-2	8 (3.9)	1 (1.9)	0 (0)	0 (0)	1 (25)	0 (0)	0 (0)	0 (0)
B	Restricted	-	22 (10.8)	17 (31.5)	119 (45.2)	95 (89.6)	0 (0)	0 (0)	3 (100)	3 (100)
C	Diversified	-	79 (38.9)	36 (66.7)	54 (20.5)	11 (10.4)	1 (25)	1 (100)	0 (0)	0 (0)
D	Non-prokaryotic	-	79 (38.9)	-	81 (30.8)	-	1 (25)	-	0 (0)	-

[ ] shows total number of the KEGG modules containing branched modules. “Rare” indicates the modules completed by less than 10% of 768 prokaryotic species. Universal: the modules completed by more than 70% of 768 prokaryotic species, Restricted: the modules completed by less than 30% of 768 prokaryotic species. Diversified: the modules that varies in the module completion ratio among 768 prokaryotic species, Non-prokaryotic: the modules not to be completed by any prokaryotic species.

ISSN: 1471-2164