TABLE 1.

Reference strains used in this study and results of the PCR targeting ISPα genes of the toluene/biphenyl oxygenase subfamily

Organism	Relevant aromatic growth substratea	Reference(s)	Reported ISPα gene(s)	GenBank accession no.	PCR primer setc
					BPDOXF/ BPDOXR	bphAf668-3/bphAf1153-2
Burkholderia xenovorans LB400	Bphb	10, 31	bphA1	M86348	+	+
Cupriavidus necator H850	Bph	6	bphA1	AJ544525	+	+
Ralstonia sp. strain PS12	Tcb	7	tecA1	U78099	+	+
Rhodococcus globerulus P6	Bph	2	bphA1	X80041	(+)	+
Pandoraea sp. strain JB1*	NS				+	+
Pseudomonas sp. strain Cam-1	Bph	45	bphA1	AY027651	+	+
Pseudomonas sp. strain IC	Bph, Tt	14	bphX	AF077669	+	+
Pseudomonas aeruginosa JI104	B	42	bnzA	E04215	+	+
Pseudomonas fluorescens IP01	T, Eb, Ipb	1, 16	cumA1	D37828	+	+
Pseudomonas pseudoalcaligenes KF707	Bph	25	bphA1	M83673	+	+
Pseudomonas stutzeri AN10	Nah	11	nahAc	AF039533	−	−
Pseudomonas stutzeri OM1	Car	49	carAa	AB001723	−	−
Pseudomonas stutzeri OX1	B, T, Ph, o-X	9			−	−
Pseudomonas putida F1	B, T, Eb, p-C	21, 29	todC1, cmtAb	J04996, U24215	+	+
Pseudomonas putida G7	Nah	58	nahAc	M83949	−	−
Pseudomonas sp. strain CF600	Ph	56			−	−
Pseudomonas putida mt-2	T, m-X, p-X, Tt, Bt	12	xylX, benA	M64747, AAN68769	−	−
Pseudomonas putida MT53	T, m-X, p-X, Tt	40	xylX		−	−
Pseudomonas putida HS1	T, m-X, p-X	43	xylX	AF134348	−	−
Pseudomonas putida 3,5X	Ph	48			−	−

^aB, benzene; T, toluene; Eb, ethylbenzene; Ipb, isopropylbenzene; m-X, m-xylene; o-X, o-xylene; p-X, p-xylene; p-C, p-cumate; Tt, toluate; Bt, benzoate; Ph, phenol; Tcb, tetrachlorobenzene; Bph, biphenyl; Nah, naphthalene; Car, carbazole. NS, not specified.

^bBoldface type indicates that initial attack proceeds via a Rieske nonheme iron oxygenase of the toluene/biphenyl subfamily (30).

^c+, PCR signal; (+), weak PCR signal; −, no PCR signal.