TABLE 3.

A. pleuropneumoniae genes which are downregulated during planktonic life over SJPL cellsa

Locus tagGeneDescriptionFold change
Hypothetical/unclassified/unknown
    APL_1387Predicted metal-binding, possibly nucleic acid-binding protein−2.431
    APL_0053typAPredicted membrane GTPase involved in stress response−2.386
    APL_0173Hypothetical cytosine deaminase and related metal-dependent hydrolases−2.056
    APL_1863Predicted glycosyltransferase−2.027
    APL_1956Hypothetical protein−2.000
    APL_0936Putative integral membrane protein−1.829
Energy metabolism
    APL_1849lldDl-Lactate dehydrogenase (FMN dependent) and related alpha-hydroxy acid dehydrogenases−3.284
    APL_0592guaAGMP synthase−2.629
    APL_1219fldAFlavodoxin−2.276
Transport and binding proteins: cations and iron
    APL_1047hgbAHemoglobin-binding protein A precursor−9.346
    APL_1571tonB1Periplasmic energy transducing protein TonB1−5.319
    APL_1952Outer membrane receptor protein, mostly Fe transport−3.517
    APL_0077exbD2Energy transducing protein ExbD2−3.499
    APL_1953Outer membrane receptor protein, mostly Fe transport−2.874
    APL_0670Putative Fe2+/Pb2+ permease−2.406
    APL_1048hugZHeme utilization protein−2.387
    APL_0272yfeAIron (chelated) ABC transporter, periplasmic binding protein−2.339
    APL_0271yfeBputative chelated iron transport system ATP-binding protein−2.251
    APL_0714Putative ABC-type enterochelin transport system, periplasmic component−2.178
    APL_1954Outer membrane receptor proteins, mostly Fe transport−2.163
    APL_0715COG4606: ABC-type enterochelin transport system, permease component−1.993
    APL_1955Outer membrane receptor proteins, mostly Fe transport−1.891
    APL_0717COG4604: ABC-type enterochelin transport system, ATPase component−1.760
    APL_0127yfeDPutative iron transport system membrane protein−1.718
Transport and binding proteins: others
    APL_0300tolQColicin transport protein−2.584
    APL_1392ptnCMannose permease component IIC−2.135
    APL_1393ptnDMannose permease component IID−2.043
    APL_1584cpxBCapsule polysaccharide export inner membrane protein−1.863
    APL_1585cpxACapsule polysaccharide export ATP-binding protein−1.572
    APL_1583cpxCCapsule polysaccharide export inner membrane protein−1.549
Transcription
    APL_0638nusATranscription elongation factor−3.997
    APL_0577pnpPolyribonucleotide nucleotidyltransferase−2.375
    APL_0757rnbExoribonuclease II−1.665
    APL_0543rncRNase III−1.539
Purines, pyrimidines, nucleosides, and nucleotides
    APL_0148rnr1Ribonucleotide reductase, alpha subunit−2.556
    APL_0593guaBInosine-5′-monophosphate dehydrogenase−2.474
    APL_0147Ribonucleotide reductase, beta subunit−2.438
    APL_0255gptXanthine phosphoribosyltransferase−2.316
    APL_0661purKPhosphoribosylaminoimidazole carboxylase ATPase subunit−2.091
    APL_1172purDPhosphoribosylamine-glycine ligase−1.883
    APL_2018purCPhosphoribosylaminoimidazole-succinocarboxamide synthase−1.717
    APL_0834udkUridine kinase−1.396
Protein fate
    APL_1507tigFKBP-type peptidyl-prolyl cis-trans isomerase (trigger factor)−3.849
    APL_0364Ssa1Autotransporter serine protease−2.279
Protein synthesis
    APL_1718rplK50S ribosomal protein L11−5.061
    APL_0639infBTranslation initiation factor 2 (IF-2)−4.243
    APL_1774rplFRibosomal protein L6−3.954
    APL_1720rplJRibosomal protein L10−3.833
    APL_1558rpsT30S ribosomal protein S20−3.720
    APL_1765rplV50S ribosomal protein L22−3.039
    APL_0566rpsB30S ribosomal protein S2−2.842
    APL_1400rpsG30S ribosomal protein S7−2.714
    APL_0487rplY50S ribosomal protein L25 (general stress protein Ctc)−2.364
    APL_1762rplW50S ribosomal protein L23−2.330
    APL_1763rplB50S ribosomal protein L2−2.265
    APL_1761rplD50S ribosomal protein L4−2.254
    APL_0223infCTranslation initiation factor 3 (IF-3)−2.192
    APL_1773rpsH30S ribosomal protein S8−2.100
    APL_1775rplR50S ribosomal protein L18−2.020
    APL_0399ksgADimethyladenosine transferase (rRNA methylation)−1.950
    APL_1401rpsL30S ribosomal protein S12−1.914
    APL_1972rpmG50S ribosomal protein L33−1.902
    APL_0040yhbZHypothetical GTP-binding protein−1.721
    APL_1228infATranslation initiation factor 1−1.716
    APL_0678efpTranslation elongation factor P−1.708
    APL_1781rpsM30S ribosomal protein S13−1.705
    APL_1383tRNA (guanine-N(7)-)-methyltransferase−1.688
    APL_0641truBtRNA pseudouridine synthase B−1.660
    APL_1476tyrSTyrosyl-tRNA synthetase−1.646
    APL_1789rplS50S ribosomal protein L19−1.521
Cellular processes
    APL_0669Predicted iron-dependent peroxidase−2.630
    APL_1443apxIBToxin RTX-I translocation ATP-binding protein−1.753
Cell envelope
    APL_0933ompP1Putative long-chain-fatty-acid transport protein precursor−8.199
    APL_0651galUUTP-glucose-1-phosphate uridylyltransferase−2.114
    APL_1989Predicted membrane protein−1.951
    APL_1071Putative xanthine/uracil permease−1.817
Fatty acid and phospholipid metabolism
    APL_1864accBBiotin carboxyl carrier protein of acetyl-CoA carboxylaseb−2.570
    APL_1865accCBiotin carboxylase−2.444
    APL_1889fabA3-Hydroxydecanoyl-(acyl carrier protein) dehydratase−2.426
    APL_1385plsXFatty acid/phospholipid biosynthesis enzyme PlsX−1.922
Amino acid biosynthesis
    APL_0194aroKShikimate kinase−2.401
    APL_1499thrCThreonine synthase−2.083
DNA metabolism
    APL_0190fisFactor for inversion stimulation (Fis), transcriptional activator−2.209
    APL_0074recRRecombinational DNA repair protein (RecF pathway)−1.634
Central intermediary metabolism
    APL_1508Putative rhodanese-related sulfurtransferase−2.860
    APL_0175dksADnaK suppressor protein−1.845
    APL_0349glgAGlycogen synthase−1.505
  • a Eighty-eight genes.

  • b CoA, coenzyme A.