. 2009 Jan 12;77(4):1426–1441. doi: 10.1128/IAI.00297-08

TABLE 3.

A. pleuropneumoniae genes which are downregulated during planktonic life over SJPL cells^a

Locus tag	Gene	Description	Fold change
Hypothetical/unclassified/unknown
APL_1387		Predicted metal-binding, possibly nucleic acid-binding protein	−2.431
APL_0053	typA	Predicted membrane GTPase involved in stress response	−2.386
APL_0173		Hypothetical cytosine deaminase and related metal-dependent hydrolases	−2.056
APL_1863		Predicted glycosyltransferase	−2.027
APL_1956		Hypothetical protein	−2.000
APL_0936		Putative integral membrane protein	−1.829
Energy metabolism
APL_1849	lldD	l-Lactate dehydrogenase (FMN dependent) and related alpha-hydroxy acid dehydrogenases	−3.284
APL_0592	guaA	GMP synthase	−2.629
APL_1219	fldA	Flavodoxin	−2.276
Transport and binding proteins: cations and iron
APL_1047	hgbA	Hemoglobin-binding protein A precursor	−9.346
APL_1571	tonB1	Periplasmic energy transducing protein TonB1	−5.319
APL_1952		Outer membrane receptor protein, mostly Fe transport	−3.517
APL_0077	exbD2	Energy transducing protein ExbD2	−3.499
APL_1953		Outer membrane receptor protein, mostly Fe transport	−2.874
APL_0670		Putative Fe²⁺/Pb²⁺ permease	−2.406
APL_1048	hugZ	Heme utilization protein	−2.387
APL_0272	yfeA	Iron (chelated) ABC transporter, periplasmic binding protein	−2.339
APL_0271	yfeB	putative chelated iron transport system ATP-binding protein	−2.251
APL_0714		Putative ABC-type enterochelin transport system, periplasmic component	−2.178
APL_1954		Outer membrane receptor proteins, mostly Fe transport	−2.163
APL_0715		COG4606: ABC-type enterochelin transport system, permease component	−1.993
APL_1955		Outer membrane receptor proteins, mostly Fe transport	−1.891
APL_0717		COG4604: ABC-type enterochelin transport system, ATPase component	−1.760
APL_0127	yfeD	Putative iron transport system membrane protein	−1.718
Transport and binding proteins: others
APL_0300	tolQ	Colicin transport protein	−2.584
APL_1392	ptnC	Mannose permease component IIC	−2.135
APL_1393	ptnD	Mannose permease component IID	−2.043
APL_1584	cpxB	Capsule polysaccharide export inner membrane protein	−1.863
APL_1585	cpxA	Capsule polysaccharide export ATP-binding protein	−1.572
APL_1583	cpxC	Capsule polysaccharide export inner membrane protein	−1.549
Transcription
APL_0638	nusA	Transcription elongation factor	−3.997
APL_0577	pnp	Polyribonucleotide nucleotidyltransferase	−2.375
APL_0757	rnb	Exoribonuclease II	−1.665
APL_0543	rnc	RNase III	−1.539
Purines, pyrimidines, nucleosides, and nucleotides
APL_0148	rnr1	Ribonucleotide reductase, alpha subunit	−2.556
APL_0593	guaB	Inosine-5′-monophosphate dehydrogenase	−2.474
APL_0147		Ribonucleotide reductase, beta subunit	−2.438
APL_0255	gpt	Xanthine phosphoribosyltransferase	−2.316
APL_0661	purK	Phosphoribosylaminoimidazole carboxylase ATPase subunit	−2.091
APL_1172	purD	Phosphoribosylamine-glycine ligase	−1.883
APL_2018	purC	Phosphoribosylaminoimidazole-succinocarboxamide synthase	−1.717
APL_0834	udk	Uridine kinase	−1.396
Protein fate
APL_1507	tig	FKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor)	−3.849
APL_0364	Ssa1	Autotransporter serine protease	−2.279
Protein synthesis
APL_1718	rplK	50S ribosomal protein L11	−5.061
APL_0639	infB	Translation initiation factor 2 (IF-2)	−4.243
APL_1774	rplF	Ribosomal protein L6	−3.954
APL_1720	rplJ	Ribosomal protein L10	−3.833
APL_1558	rpsT	30S ribosomal protein S20	−3.720
APL_1765	rplV	50S ribosomal protein L22	−3.039
APL_0566	rpsB	30S ribosomal protein S2	−2.842
APL_1400	rpsG	30S ribosomal protein S7	−2.714
APL_0487	rplY	50S ribosomal protein L25 (general stress protein Ctc)	−2.364
APL_1762	rplW	50S ribosomal protein L23	−2.330
APL_1763	rplB	50S ribosomal protein L2	−2.265
APL_1761	rplD	50S ribosomal protein L4	−2.254
APL_0223	infC	Translation initiation factor 3 (IF-3)	−2.192
APL_1773	rpsH	30S ribosomal protein S8	−2.100
APL_1775	rplR	50S ribosomal protein L18	−2.020
APL_0399	ksgA	Dimethyladenosine transferase (rRNA methylation)	−1.950
APL_1401	rpsL	30S ribosomal protein S12	−1.914
APL_1972	rpmG	50S ribosomal protein L33	−1.902
APL_0040	yhbZ	Hypothetical GTP-binding protein	−1.721
APL_1228	infA	Translation initiation factor 1	−1.716
APL_0678	efp	Translation elongation factor P	−1.708
APL_1781	rpsM	30S ribosomal protein S13	−1.705
APL_1383		tRNA (guanine-N(7)-)-methyltransferase	−1.688
APL_0641	truB	tRNA pseudouridine synthase B	−1.660
APL_1476	tyrS	Tyrosyl-tRNA synthetase	−1.646
APL_1789	rplS	50S ribosomal protein L19	−1.521
Cellular processes
APL_0669		Predicted iron-dependent peroxidase	−2.630
APL_1443	apxIB	Toxin RTX-I translocation ATP-binding protein	−1.753
Cell envelope
APL_0933	ompP1	Putative long-chain-fatty-acid transport protein precursor	−8.199
APL_0651	galU	UTP-glucose-1-phosphate uridylyltransferase	−2.114
APL_1989		Predicted membrane protein	−1.951
APL_1071		Putative xanthine/uracil permease	−1.817
Fatty acid and phospholipid metabolism
APL_1864	accB	Biotin carboxyl carrier protein of acetyl-CoA carboxylase^b	−2.570
APL_1865	accC	Biotin carboxylase	−2.444
APL_1889	fabA	3-Hydroxydecanoyl-(acyl carrier protein) dehydratase	−2.426
APL_1385	plsX	Fatty acid/phospholipid biosynthesis enzyme PlsX	−1.922
Amino acid biosynthesis
APL_0194	aroK	Shikimate kinase	−2.401
APL_1499	thrC	Threonine synthase	−2.083
DNA metabolism
APL_0190	fis	Factor for inversion stimulation (Fis), transcriptional activator	−2.209
APL_0074	recR	Recombinational DNA repair protein (RecF pathway)	−1.634
Central intermediary metabolism
APL_1508		Putative rhodanese-related sulfurtransferase	−2.860
APL_0175	dksA	DnaK suppressor protein	−1.845
APL_0349	glgA	Glycogen synthase	−1.505

Eighty-eight genes.

CoA, coenzyme A.