Table 2.

Functional categorization and potential response element regulation of select hepatic genes differentially expressed by 30 μg/kg TCDD, 300 mg/kg PCB153, and MIX.

Functional category	Gene ID	Gene name	Gene symbol	TCDD*	PCB153*	MIX*	DREsa	PXREsa	CAREsa
	11761	Aldehyde oxidase 1	Aox1	2.2	2.9	4.8	yes	yes	yes
	11997	Aldo-keto reductase family 1, member B7	Akr1b7	NC	22.1	16.8	yes	yes	yes
	432720	Aldo-keto reductase family 1, member C19	Akr1c19	NC	1.7	2.0	yes	yes	no
	116852	Aldo-keto reductase family 1, member C20	Akr1c20	−1.7	−1.6	−3.0	no	yes	no
Xenobiotic metabolism/Oxidoreductase activity/Oxidative stress	13076	Cytochrome P450, family 1, subfamily a, polypeptide 1	Cyp1a1	348.1	NC	348.2	yes	yes	yes
	13077	Cytochrome P450, family 1, subfamily a, polypeptide 2	Cyp1a2	2.4	1.7	2.4	yes	yes	yes
	13088	Cytochrome P450, family 2, subfamily b, polypeptide 10	Cyp2b10	NC	16.1	24.2	yes	yes	yes
	13089	Cytochrome P450, family 2, subfamily b, polypeptide 13	Cyp2b13	NC	1.9	1.9	yes	yes	yes
	13094	Cytochrome P450, family 2, subfamily b, polypeptide 9	Cyp2b9	NC	7.6	6.2	no	yes	yes
	72082	Cytochrome P450, family 2, subfamily c, polypeptide 55	Cyp2c55	NC	48.4	48.4	yes	yes	yes
	13112	Cytochrome P450, family 3, subfamily a, polypeptide 11	Cyp3a11b	−1.9	4.0	3.1	yes	yes	yes
	13113	Cytochrome P450, family 3, subfamily a, polypeptide 13	Cyp3a13	−1.9	2.5	NC	no	yes	no
	56388	Cytochrome P450, family 3, subfamily a, polypeptide 25	Cyp3a25	NC	3.8	3.0	no	yes	yes
	56050	Cytochrome P450, family 39, subfamily a, polypeptide 1	Cyp39a1	NC	2.5	2.0	yes	yes	no
	14776	Glutathione peroxidase 2	Gpx2	NC	4.3	8.9	yes	yes	yes
	14858	Glutathione S-transferase, alpha 2 (Yc2)	Gsta2	5.8	4.1	11.3	yes	yes	yes
	14863	Glutathione S-transferase, mu 2	Gstm2	2.0	2.0	2.2	yes	yes	yes
	14865	Glutathione S-transferase, mu 4	Gstm4	2.4	4.0	5.6	yes	yes	yes
	14872	Glutathione S-transferase, theta 2	Gstt2	2.0	2.0	2.2	yes	yes	yes
	18104	NAD(P)H dehydrogenase, quinone 1	Nqo1s	4.6	2.8	12.6	yes	yes	yes
	76650	Sulfiredoxin 1 homolog (S. cerevisiae)	Srxn1s	2.6	2.3	3.9	yes	yes	yes
	394435	UDP glucuronosyltransferase 1 family, polypeptide A6B	Ugt1a6b	5.6	NC	6.4	yes	yes	no
	22235	UDP-glucose dehydrogenase	Ugdh	2.7	2.5	2.7	yes	yes	yes
	12491	CD36 antigen	Cd36	5.7	NC	6.1	yes	yes	yes
	26903	Dysferlin	Dysfs	3.3	1.5	14.9	yes	yes	yes
	170439	ELOVL family member 6, elongation of long chain fatty acids (yeast)	Elovl6	−4.3	−3.8	−5.2	yes	yes	yes
Lipid and glucose metabolism	75497	Fatty acid binding protein 12	Fabp12	53.7	−1.5	34.4	yes	yes	yes
	14104	Fatty acid synthase	Fasn	−4.3	−3.9	−6.4	yes	yes	yes
	14718	Glutamate oxaloacetate transaminase 1, soluble	Got1	−2.6	NC	−4.3	yes	yes	yes
	14571	Glycerol phosphate dehydrogenase 2, mitochondrial	Gpd2	−3.0	1.5	−3.3	yes	yes	yes
	72999	Insulin induced gene 2	Insig2	NC	5.9	4.0	yes	yes	yes
	53357	Phospholipase A2, group VI	Pla2g6	NC	2.5	1.8	yes	yes	yes
	66350	Phospholipase A2, group XIIA	Pla2g12as	3.7	2.7	7.7	yes	yes	yes
	228026	Pyruvate dehydrogenase kinase, isoenzyme 1	Pdk1	−1.6	NC	1.6	yes	yes	no
	20250	Stearoyl-Coenzyme A desaturase 2	Scd2	2.0	NC	NC	yes	yes	yes
	20788	Sterol regulatory element binding factor 2	Srebf2	−1.7	−2.1	−1.6	yes	yes	yes
	20787	Sterol regulatory element binding transcription factor 1	Srebf1	−2.3	−2.4	−4.6	yes	yes	yes
	12125	BCL2-like 11 (apoptosis facilitator)	Bcl2l11	1.9	NC	4.2	yes	yes	no
Cell cycle/Cell death	13197	Growth arrest and DNA-damage-inducible 45 alpha	Gadd45a	−3.6	9.4	3.1	yes	no	yes
	17873	Growth arrest and DNA-damage-inducible 45 beta	Gadd45b	5.7	10.8	29.2	yes	yes	yes
	53415	HIV-1 tat interactive protein 2, homolog (human)	Htatip2	3.5	NC	4.4	yes	yes	no
	15937	Immediate early response 3	Ier3	3.5	NC	3.8	yes	yes	yes
	17869	Myelocytomatosis oncogene	Myc	3.0	4.2	7.2	yes	yes	yes
	211323	Neuregulin 1	Nrg1	2.8	NC	6.7	yes	yes	yes
	78688	Nucleolar protein 3 (apoptosis repressor with CARD domain)	Nol3	NC	4.8	4.7	yes	yes	no
	22033	Tnf receptor-associated factor 5	Traf5	2.1	NC	2.3	yes	yes	yes
	21813	Transforming growth factor, beta receptor II	Tgfbr2	1.6	1.8	2.4	yes	yes	yes
	29820	Tumor necrosis factor receptor superfamily, member 19	Tnfrsf19	3.9	2.6	7.7	yes	yes	yes
	21928	Tumor necrosis factor, alpha-induced protein 2	Tnfaip2	6.7	NC	6.9	yes	yes	yes
	66443	Tumor necrosis factor, alpha-induced protein 8-like 1	Tnfaip8l1	3.0	NC	4.1	yes	yes	yes
Immune response	12774	Chemokine (C-C motif) receptor 5	Ccr5	2.4	−1.6	NC	no	yes	yes
	56644	C-type lectin domain family 7, member a	Clec7a	3.9	NC	2.9	yes	yes	yes
	58239	Dexamethasone-induced transcript	Dexi	−1.9	−1.9	−4.3	yes	yes	no
	14129	Fc receptor, IgG, high affinity I	Fcgr1	2.4	NC	1.9	yes	yes	no
	14969	Histocompatibility 2, class II antigen E beta	H2-Eb1	7.8	NC	5.0	yes	yes	yes
	14998	Histocompatibility 2, class II, locus DMa	H2-DMa	4.0	NC	2.7	yes	yes	yes
	14999	Histocompatibility 2, class II, locus Mb1	H2-DMb1	4.9	NC	3.2	yes	yes	yes
	15900	Interferon regulatory factor 8	Irf8	3.1	NC	2.0	yes	yes	yes
	16994	Lymphotoxin B	Ltb	2.9	NC	2.3	yes	yes	yes
	17304	Milk fat globule-EGF factor 8 protein	Mfge8	4.6	NC	5.0	yes	yes	yes
	20719	Serine (or cysteine) peptidase inhibitor, clade B, member 6a	Serpinb6as	5.1	NC	11.0	yes	yes	yes
	20208	Serum amyloid A 1	Saa1	3.4	NC	3.2	yes	yes	no
	20209	Serum amyloid A 2	Saa2	3.2	NC	3.2	yes	yes	yes
	20210	Serum amyloid A 3	Saa3	7.8	NC	3.5	yes	yes	no

NC - no change.

^*Maximum fold change on the microarray (|fold change| >1.5, P1(t) > 0.90).

^aPutative DNA response elements identified by computational searches (see Materials and Methods).

^bQRTPCR results. The Agilent microarray Cyp3a11 probe maps the 60-mer region between positions 1105 and 1164 of the Cyp3a11 gene, which is 2053 bp long, while Cyp3a11 primers (listed in a Supplementary Table 3) amplify the 119 bp fragment between 1701 and 1819 bp suggesting that both approaches amplify non-overlapping regions of the gene.

^sSynergistic response verified by non-linear logistic modeling of QRTPCR dose-response data.