TABLE 1.

All genes involved in nitrogen metabolism and their CGH data^a

Reactionb	Gene; name of enzyme encoded	CGH result for indicated strainc
		BL225C	BO21CC	AK58	AK83
Nitrate → nitrite	SMa1236; NapA periplasmic nitrate reductase	No	No	No	No
	SMb20986; putative nitrate reductase, large subunit	No	No	No	No
Nitrite → nitric oxide	SMa1250; putative NirK Cu-nitrite reductase	No	No	No	Mut
	SMa1038; putative copper-containing oxidase	Mut	No	No	No
	SMc02282; putative copper-containing oxidase	No	No	No	No
Nitrite → ammonium	SMb20984; NirB, putative nitrite reductase	No	No	No	No
	SMb20985; NirD, putative nitrite reductase	No	No	No	No
Ammonium → carbamyl phosphate	SMa0697; carbamate kinase	Mut	Mut	No	Mut
Ammonium → glycine	SMa2145; aminomethyltransferase	Mut	Mut	Mut	Mut
	SMc04148; aminomethyltransferase	No	No	No	No
	SMc02047; aminomethyltransferase	No	No	No	No
Ammonium → cyclic amidines	SMc00161; NAD synthetase	No	No	No	No
Ammonium → glutamine	SMb20745; GlnII, putative glutamine synthetase II protein	No	No	No	No
	SMc00762; putative glutamine synthetase protein	No	No	No	No
	SMc00948; GlnA, glutamine synthetase I protein	No	No	No	Dup
	SMc01973; putative protein homologous to a glutamine synthetase protein	No	No	No	No
	SMc02352; putative glutamine synthetase protein	No	No	No	No
	SMc02613; GlnT, glutamine synthetase III protein	No	No	No	No
	SMc00486; GlsA, glutaminase	No	No	No	No
	SMa0306; putative histidine ammonia-lyase	No	No	No	No
Ammonium ↔ alpha amino acids	SMb21165; HutH, histidine ammonia-lyase	No	No	No	No
	SMc00669; HutH2, histidine ammonia-lyase	No	No	No	No
	SMb20267; putative d-amino acid dehydrogenase protein	No	No	No	No
	SMc03265; putative amino acid dehydrogenase transmembrane protein	Mut	No	No	No
	SMb21529; TauD, putative oxidoreductase protein	No	Dup	No	No
	SMb21670; taurine dehydrogenase, small subunit	No	No	No	No

^aCGH data are from reference 19.

^bReactions are depicted in Fig. 4B.

^cCGH results are relative to those in strain Rm1021. No, no mutation or deletion; Mut, mutation or deletion of the probe sequence from CGH data; Dup, duplication of the probe sequence from CGH data.