Table 3.

Genes with Decreased Level of Transcript in Brucella spp. Infected as Compared to Uninfected RAW 264.7 Macrophages

H1: Mφ ≠ Mφ + B. melitensis = Mφ + B. neotomae = Mφ + B. ovis
Probe set	Entrez gene	SLRa			Average ± SEM	EBarrays probability	Gene symbol	Gene product	Additional statisticsc
		Mb	Nb	Ob
Small GTPase mediated signal transduction
97415_at	19340	−2.6	−2.0	−3.2	−2.6 ± 0.3	0.866	Rab3d	RAB3D, member RAS oncogene family	b, c
97227_at	14673	−2.2	−2.5	−1.9	−2.2 ± 0.3	0.807	Gna12	Guanine nucleotide binding protein, alpha 12	a
97549_at	12632	−2.1	−2.2	−1.9	−2.1 ± 0.3	0.662	Cfl2	Cofilin 2, muscle
93850_at	29875	−2.7	−2.0	−1.3	−2.0 ± 0.4	0.494	Iqgap1	IQ motif containing GTPase activating protein 1
Cell proliferation
161417_r_at	18109	−2.5	−2.8	−2.5	−2.6 ± 0.5	0.968	Mycn	V-myc myelocytomatosis viral related oncogene, neuroblastoma derived (avian)
93943_f_at	12193	−2.5	−2.4	−2.4	−2.4 ± 0.5	0.925	Zfp36l2	Zinc finger protein 36, C3H type-like 2
93713_at	20416	−2.5	−2.7	−2.2	−2.5 ± 0.3	0.914	Shc1	Src homology 2 domain-containing transforming protein C1
92300_at	17428	−2.4	−2.0	−2.9	−2.4 ± 0.3	0.889	Mnt	Max binding protein	c
99076_at	353187	−2.2	−1.7	−2.8	−2.3 ± 0.3	0.786	Nr1d2	Nuclear receptor subfamily 1 group D member 2	c
101571_g_at	16010	−2.0	−1.7	−3.0	−2.3 ± 0.2	0.685	Igfbp4	Insulin-like growth factor binding protein 4
99024_at	17122	−2.0	−1.8	−2.2	−2.0 ± 0.3	0.557	Mad4	Max dimerization protein 4
100444_at	12568	−2.4	−1.9	−1.6	−2.0 ± 0.4	0.520	Cdk5	Cyclin-dependent kinase 5
Carboxylic acid metabolism
93320_at	12894	−3.4	−1.9	−3.1	−2.8 ± 0.4	0.663	Cpt1a	Carnitine palmitoyltransferase 1a, liver	c
96799_at	30839	−2.7	−2.2	−2.3	−2.4 ± 0.3	0.897	Fbxw5	F-box and WD-40 domain protein 5
96126_at	20397	−2.3	−2.4	−2.0	−2.2 ± 0.2	0.704	Sgpl1	Sphingosine phosphate lyase 1
94405_at	21366	−2.7	−1.5	−1.7	−2.0 ± 0.2	0.444	Slc6a6	Solute carrier family 6 (neurotransmitter transporter, taurine), member 6
Response to external stimulus
101433_at	15064	−2.4	−2.4	−2.4	−2.4 ± 0.3	0.918	Mr1	Major histocompatibility complex, class I-related
104228_at	668701	−2.2	−2.2	−2.6	−2.3 ± 0.4	0.865	EG668701	Similar to Rap guanine nucleotide exchange factor 2
103250_at	54722	−2.7	−2.1	−2.0	−2.3 ± 0.2	0.838	Dfna5h	Deafness, autosomal dominant 5 homolog
104372_at	64296	−2.6	−2.2	−1.9	−2.2 ± 0.2	0.793	Abhd8	Abhydrolase domain containing 8
99349_at	16171	−1.7	−2.5	−2.1	−2.1 ± 0.3	0.681	Il17a	Interleukin 17A
93218_at	20947	−2.3	−2.0	−1.7	−2.0 ± 0.4	0.573	Swap70	SWAP complex protein
Protein modification
99643_f_at	12876	−3.7	−3.8	−2.7	−3.4 ± 0.4	0.949	Cpe	Carboxypeptidase E	b
161848_r_at	19260	−2.5	−2.2	−2.4	−2.4 ± 0.4	0.870	Ptpn22	Protein tyrosine phosphatase, non-receptor type 22 (lymphoid)
92427_at	21812	−2.4	−1.9	−2.3	−2.2 ± 0.4	0.729	Tgfbr1	Transforming growth factor, beta receptor I
99642_i_at	12876	−3.0	−2.1	−1.3	−2.2 ± 0.7	0.618	Cpe	Carboxypeptidase E
100427_at	19277	−2.0	−1.4	−2.7	−2.0 ± 0.3	0.552	Ptpro	Protein tyrosine phosphatase, receptor type, O	b, c
Transcription from Pol II promoter
104591_g_at	17260	−2.4	−2.9	−2.5	−2.6 ± 0.2	0.932	Mef2c	Myocyte enhancer factor 2C	b, c
104590_at	17260	−2.8	−2.0	−2.2	−2.3 ± 0.2	0.821	Mef2c	Myocyte enhancer factor 2C	a, b
96171_at	54006	−2.1	−1.6	−2.4	−2.0 ± 0.2	0.580	Deaf1	Deformed epidermal autoregulatory factor 1 (Drosophila)	b
Cytoskeleton organization and biogenesis
95705_s_at	11461	−2.2	−3.1	−2.4	−2.6 ± 0.5	0.887	Actb	Actin, beta, cytoplasmic
161981_r_at	14246	−2.6	−1.6	−2.4	−2.2 ± 0.4	0.693	Flg	Filaggrin
Metabolism
94872_at	57319	−2.8	−2.5	−2.8	−2.7 ± 0.4	0.934	Smpdl3a	Sphingomyelin phosphodiesterase, acid-like 3A
161733_at	59010	−2.4	−2.9	−2.1	−2.5 ± 0.3	0.919	Sqrdl	Sulfide quinone reductase-like
101972_at	16541	−2.8	−2.4	−2.5	−2.6 ± 0.3	0.915	Napsa	Napsin A aspartic peptidase
99667_at	12862	−2.3	−2.2	−2.5	−2.3 ± 0.5	0.878	Cox6a2	Cytochrome c oxidase, subunit VI a, polypeptide 2
103538_at	21386	−1.8	−2.1	−2.5	−2.1 ± 0.3	0.680	Tbx3	T-box 3
96035_at	12039	−1.7	−2.0	−2.4	−2.0 ± 0.4	0.606	Bckdha	Branched chain ketoacid dehydrogenase E1, alpha polypeptide
97560_at	19156	−1.4	−3.0	−1.7	−2.0 ± 0.4	0.381	Psap	Prosaposin
Cell communication
160932_at	17973	−2.6	−2.6	−2.6	−2.6 ± 0.1	0.964	Nck1	Non-catalytic region of tyrosine kinase adaptor protein 1	a, b
97768_at	13506	−2.2	−2.1	−2.6	−2.3 ± 0.3	0.803	Dsc2	Desmocollin 2
Cell growth and/or maintenance
92695_at	14296	−2.0	−1.6	−2.7	−2.1 ± 0.3	0.658	Frat1	Frequently rearranged in advanced T-cell lymphomas
103534_at	15130	−2.8	−2.0	−1.5	−2.1 ± 0.2	0.626	Hbb-b2	Hemoglobin, beta adult minor chain	b
93736_at	21452	−2.0	−2.0	−2.3	−2.1 ± 0.3	0.606	Tcn2	Transcobalamin 2
Miscellaneous classification
96494_at	75785	−2.9	−2.7	−2.5	−2.7 ± 0.2	0.959	Klhl24	Kelch-like 24 (Drosophila)
103933_at	22619	−2.9	−1.9	−2.8	−2.5 ± 0.2	0.895	Siae	Sialic acid acetylesterase	b
104299_at	224454	−3.0	−1.9	−2.5	−2.5 ± 0.3	0.852	Zdhhc14	Zinc finger, DHHC domain containing 14
94299_at	69654	−2.5	−2.0	−2.2	−2.2 ± 0.2	0.788	Dctn2	Dynactin 2
162116_r_at	116891	−3.0	−2.7	−1.7	−2.5 ± 0.9	0.741	Derl2	Der1-like domain family, member 2
160934_s_at	73094	−3.0	−2.6	−1.6	−2.4 ± 0.5	0.692	Sgip1	SH3-domain GRB2-like (endophilin) interacting protein 1
104714_at	105445	−2.2	−1.7	−2.2	−2.0 ± 0.2	0.611	Dock9	Dedicator of cytokinesis 9
162075_r_at	17476	−2.7	−1.5	−3.8	−2.7 ± 0.4	0.551	Mpeg1	Macrophage expressed gene 1
96464_at	140570	−2.1	−2.2	−1.9	−2.1 ± 0.2	0.518	Plxnb2	Plexin B2
160905_s_at	80515	−2.2	−2.2	−2.1	−2.1 ± 0.3	0.735	A030009 H04Rik	RIKEN cDNA A030009H04 gene
97119_at	99029	−2.6	−2.5	−2.2	−2.4 ± 0.3	0.911	AI596198	Expressed sequence AI596198
97752_at	99358	−2.0	−2.1	−2.8	−2.3 ± 0.3	0.858	E13001 3N09Rik	RIKEN cDNA E130013N09 gene
103748_at	74440	−2.9	−1.6	−2.1	−2.2 ± 0.2	0.645	4933407 C03Rik	RIKEN cDNA 4933407C03 gene
94069_r_at	67163	−3.4	−2.3	−2.2	−2.6 ± 0.3	0.946	2610204 L23Rik	RIKEN cDNA 2610204L23 gene

^aSignal log ratio = LOG₂ (experimental Brucella spp. infected signal/control uninfected signal) ± SEM.

^bM, N, O indicate Brucella spp. used to infect macrophages B. melitensis, B. neotomae and B. ovis, respectively.

^cIdentified by additional statistical analyses: a, ANOVA P ≥ 0.01; b, SAM delta = 0.05; c, B. abortus microarrays (14).