TABLE 1.

Functional reconstruction of NAD(P) metabolic pathways from genomic data^a

Organism	De novo pathway			Universal pathway				Niacin recycling		Niacin salvage		Nicotinamide ribose salvage
	ASPOX	QSYN	QPRT	NaMNAT	NADS	GATf	NADK	NMPRTb	NMNATc	NAM	NAPRT	PnuC	RNK	NMNATd
Synechocystis sp. strain PCC 6803	sll0631	sll0622	slr0936	sll1916	slr1691	slr1691	sll1415	slr0788	slr0787
							slr0400
Synechococcus elongatus PCC 7942	1195	777	294	2414	2415	2415	1179	2328	2329
							1605
Synechococcus sp. strain WH 8102	2185	1311	2311	500	499	499	1594
							2261
Prochlorococcus marinus MIT 9313	177	661	2064	1454	1455	1455	2008
							368
Prochlorococcus marinus CCMP1375	119	1011	213	1595	1596	1596	1340
							180
Prochlorococcus marinus CCMP1986	100	675	188	1441	1442	1442	1265
							156
Gloeobacter violaceus PCC 7421	846	192	888	4016	2587	2587	3525		1660
							473
Trichodesmium erythraeum IMS101	1272	1282	3078	2493	772	772	141				2494
	1273						457
Thermosynechococcus elongatus BP-1	2407	231	1712	1177	1179	1179	483			545e	1176
							857
Crocosphaera watsonii WH 8501	2684	4205	654	3610	3608	3608	161			358	3611
							42
Nostoc sp. strain PCC 7120	1527	4980	2398	2790	2792	2792	5058			5469	2789
				5370			538
Anabaena variabilis ATCC 29413	80	2778	4661	4802	4800	4800	5436			1339	4803
				4373			652
Nostoc punctiforme	4768	6260	6375	5605	5607	5607	981			1255	5604	3159	3160	3160
				5019			5859
Escherichia coli K-12	nadB	nadA	nadC	nadD	nadE	?	nadK			pncA	pncB	pncC	nadR	nadR
Staphylococcus epidermidis				1280	1596	?	696			1601	1597
Haemophilus influenzae R2846							1197					82	378	378
Rhodospirillum rubrum	2934	2933	2935	3129	1657	1657	1821			642

^aThe presence of genes assigned with respective functional roles are shown by CyanoBase identification numbers for Synechocystis sp. strain PCC 6803, by common gene names in E. coli, and by abbreviated SEED identification numbers for all other genomes. Underlining reflects the proximity of the genes on the chromosome: in each row, numbers with matching underlining mark genes that occur in the same chromosomal cluster (illustrated in Fig. 2). Multifunctional (fused) proteins with more than one functional domain are shown in boldface type. Enzyme abbreviations are as described in the legend of Fig. 1. This table was generated using Subsystem encoding tools in SEED; the complete “NAD and NADP cofactor biosynthesis global” subsystem spreadsheet containg over 200 genomes can be viewed at http://theseed.uchicago.edu/FIG/organisms.cgi?show=cyano (select “all organisms” option).

^bMembers of NadV family, identified in Haemophilus ducreyi (34), present in V-factor-independent Pasteurellaceae but not in E. coli.

^cNMNAT of NadM family (as in archaea) containing an additional ADPRP domain.

^dNMNAT of NadR family (as in H. influenzae) containing an additional RNK domain.

^eGene is apparently interrupted by a transposon insertion.

^f?, the mechanism of NaAD amidation by single-domain NADS (lacking a GAT component) remains unknown.