Gene Name/PA

Supplemental Figure 1

Gene Name/PA# / Increased Expression Out of 4 Array Sets / Fold Incr. / Significance
PA0026 PlcB phospholipase C / 2* / 2.6 / 0.000004
PA0029 probable sulfate transporter / 2 / 2.3 / 0.000063
PA0030 ABC-type proline/glycine betaine transport system / 4 / 2.3 / 0.000005
PA0031 choline sulfatase / 3 / 2.2 / 0.000078
PA0070 HUU-membrane protein / 2 / 2.7 / 0.000004
PA0080 HUU / 2 / 2.6 / 0.00001
PA0083 61% similar to Edwardsiella ictaluri protein / 2 / 4.7 / 0.000004
PA0084 66% similar to Edwardsiella ictaluri protein / 2 / 4.4 / 0.000005
PA0085 Hcp, hemolysin-coregulated protein / 2 / 2 / 0.000047
PA0086 ImpE avirulence protein involved in secretion / 2 / 2.4 / 0.000089
PA0087 45% similar to 18.8 kDa protein Edwardsiella ictaluri / 2 / 2.4 / 0.000842
PA0088 HUU / 2 / 2 / 0.000382
PA0090 ClpA chaperone / 2 / 3.3 / 0.000012
PA0105 CoxB - heme/copper-type cytochrome/quinol oxidases, subunit 2 / 4 / 2.8 / 0.000005
PA0106 CoxA - heme/copper-type cytochrome/quinol oxidases, subunit 1 / 4* / 3.3 / 0.000004
PA0107 cytochrome oxidase assembly factor / 4 / 3.2 / 0.000004
PA0108 heme/copper-type cytochrome/quinol oxidase, subunit 3 / 4 / 3.6 / 0.000011
PA0110 SurF-1family, biogenesis of cytochrome c oxidase / 4* / 2.8 / 0.000004
PA0111 HUU in operon with PA0110 / 4 / 2.6 / 0.000014
PA0112 cytochrome oxidase assembly / 3 / 2.7 / 0.000028
PA0113 cytochrome oxidase assembly factor / 4 / 3.3 / 0.000004
PA0114 SenC. This family is involved in biogenesis of respiratory and photosynthetic systems. / 4 / 2.6 / 0.000004
PA0119 probable dicarboxylate transporter / 3 / 2.6 / 0.000475
PA0153 protocatechuate 3,4-dioxygenase, beta subunit / 2 / 2.6 / 0.00001
PA0154 protocatechuate 3,4-dioxygenase, alpha subunit / 2 / 2 / 0.000035
PA0176 Tar, Methyl-accepting chemotaxis protein / 2* / 2.1 / 0.00091
PA0182 3-oxoacyl (acyl carrier protein) reductase / 4 / 2 / 0.000221
PA0208 acyl CoA:acetate/3-ketoacid CoA transferase / 3 / 12.5 / 0.000006
PA0209 triphosphoribosyl-dephospho-CoA synthetase / 3 / 6.7 / 0.000004
PA0210 CitD, citrate lyase, gamma subunit / 4 / 7 / 0.000004
PA0211 AccD, Acetyl-CoA carboxylase beta subunit / 3 / 6.7 / 0.000006
PA0212 MdcE, malonate decarboxylase gamma subunit / 4 / 5.5 / 0.000012
PA0213 51% similar to malonate decarboxylase component / 3 / 8.5 / 0.000007
PA0214 FabD, (acyl-carrier-protein) / 3 / 5.7 / 0.000004
PA0215 malonate transporter, MadL subunit / 4 / 6.4 / 0.000004
PA0216 malonate transporter, MadM subunit / 4 / 6.2 / 0.000027
PA0276 membrane protein (cytoplasmic) unknown function / 3 / 2.1 / 0.000012
PA0277 Zn-dependent protease with chaperone function / 3 / 3.5 / 0.000005
PA0278 HUU / 3 / 8.2 / 0.000021
PA0281 CysW, ABC-type sulfate transport system / 3 / 2.5 / 0.000182
PA0358 1-acyl-sn-glycerol-3-phosphate acyltransferase / 2 / 2.3 / 0.000098
PA0364 BetA, choline dehydrogenase / 3 / 2.9 / 0.000021
PA0452 HflC, membrane protease subunits, stomatin homologs / 3 / 2 / 0.000206
PA0473 Gst, glutathione S-transferase / 4 / 2 / 0.000068
PA0482 AceB, malate synthase - glyoxylate shunt / 4 / 2 / 0.000016
PA0506 CaiA, Acyl-CoA dehydrogenase / 4 / 2 / 0.000004
PA0507 CaiA, Acyl-CoA dehydrogenases / 4 / 2.7 / 0.000081
PA0508 CaiA, Acyl-CoA dehydrogenases / 4 / 2.6 / 0.000018
PA0518 cytochrome c-551 precursor / 3 / 2 / 0.000145
PA0519 NirS, nitrite reductase precursor / 2 / 2.3 / 0.000146
PA0540 HUU cytoplasmic membrane / 2 / 2 / 0.000075
PA0565 homolog of gamma-carboxymuconolactone decarboxylase subunit / 4 / 6.1 / 0.000004
PA0566 HUU, cytoplasmic membrane / 4 / 2.7 / 0.000006
PA0585 HUU / 2 / 2 / 0.000008
PA0743 MmsB, 3-hydroxyisobutyrate dehydrogenase (Lipid metabolism) / 3 / 2 / 0.000013
PA0744 CaiD, Enoyl-CoA hydratase, beta oxidation / 3* / 2 / 0.000013
PA0745 CaiD, Enoyl-CoA hydratase, beta oxidation / 3* / 2 / 0.00006
PA0746 CaiA, Acyl-CoA dehydrogenases (Lipid metabolism) / 3* / 2 / 0.000101
PA0751 AbrB, Putative ammonia monooxygenase / 2 / 3.7 / 0.00015
PA0752 Membrane protein HUU / 2 / 2.5 / 0.00001
PA0753 Membrane proteins HUU / 3 / 5.1 / 0.000206
PA0754 HUU / 3 / 3.4 / 0.000011
PA0792 PrpD, methylcitrate dehydratase,protein involved in propionate catabolism / 2 / 2 / 0.000035
PA0793 PrpF - probable AcnD-accessory protein / 4 / 2.3 / 0.000262
PA0794 AcnA, aconitase A / 4 / 2.9 / 0.00001
PA0795 PrpC, GltA, methylcitrate synthase / 4 / 2.8 / 0.000004
PA0796 PrpB, methylisocitrate lyase / 4 / 2.7 / 0.000013
PA0797 FadR like regulator, GntR, transcriptional regulators / 3 / 2.4 / 0.000004
PA0841 HUU / 2 / 2.7 / 0.000029
PA0865 4-hydroxyphenylpyruvate dioxygenase / 4 / 4.6 / 0.000004
PA0866 GABA permease / 3 / 4.5 / 0.000201
PA0871 pterin-4a-carbinolamine dehydratase (phenylalanine metabolism) / 3 / 2 / 0.000004
PA0872 phenylalanine-4-hydroxylase / 3 / 3.2 / 0.000004
PA0884 DctP, TRAP-type C4-dicarboxylate transport system / 2 / 3.1 / 0.000179
PA0885 DctM, TRAP-type C4-dicarboxylate transport system / 2 / 3.4 / 0.000124
PA0887 Acs, Acyl-coenzyme A synthetases/AMP-fatty acid ligases / 4 / 3.9 / 0.000007
PA1051 GntP - gluconate transporter / 3 / 2.6 / 0.000138
PA1137 crotonyl-CoA reductase / 3 / 4.6 / 0.000004
PA1172 NapCperiplasmic nitrate (or nitrite) reductase / 4* / 2.2 / 0.000012
PA1173 NapB, nitrate reductase cytochrome c-type subunit / 4* / 2.5 / 0.000004
PA1174 NapA periplasmic nitrate reductase, large subunit / 4 / 2.3 / 0.000004
PA1175 NapD, formation of periplasmic nitrate reductase / 4 / 2 / 0.000089
PA1176 NapF - ferredoxin-type protein / 2 / 2.1 / 0.000114
PA1177 NapE, periplasmic nitrate reductase system / 2 / 2 / 0.000016
PA1190 HUU, cytoplasmic membrane protein / 4 / 3.5 / 0.000021
PA1285 MarR, transcriptional regulators / 3 / 2 / 0.000073
PA1286 AraJ, arabinose efflux permease / 3 / 2.9 / 0.000051
PA1288 FadL, long-chain fatty acid transport protein / 3* / 2 / 0.00008
PA1289 HUU / 3 / 2.3 / 0.000004
PA1298 HUU / 2 / 2.8 / 0.000096
PA1300 RpoE sigma 24 homolog / 2 / 2 / 0.000076
PA 1353 glyoxalase / 4 / 2 / 0.00027
PA1354 transcription factor, NusG proteins / 4 / 2 / 0.00002
PA1356 HUU / 2 / 3 / 0.000154
PA 1363 RpoE, sigma 24 homolog / 2 / 2 / 0.000187
PA1412 AraJ, arabinose efflux permease / 3 / 6.7 / 0.000004
PA1435 RND efflux membrane fusion protein / 3 / 2.9 / 0.000004
PA1437 OmpR, response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain / 3 / 2.4 / 0.000106
PA1438 BaeS, signal transduction histidine kinase / 2 / 2 / 0.00006
PA1488 hioredoxin-disulfide reductase / 2 / 2.7 / 0.000067
PA1489 FAD dependent oxidoreductase / 3 / 2.8 / 0.000018
PA1525 alkane-1-monooxygenase / 4 / 3.9 / 0.000053
PA1592 HUU, lipoprotein / 4 / 2 / 0.000212
PA1648 quinone oxidoreductase / 2 / 2.3 / 0.000102
PA1736 acetyl-CoA acyltransferase / 3 / 2.8 / 0.000004
PA1737 FadB, 3-hydroxyacyl-CoA dehydrogenase / 2 / 2.6 / 0.000014
PA1760 GerE, bacterial regulatory proteins, luxR family / 3 / 2.7 / 0.000192
PA1761 HUU / 4 / 3.1 / 0.000044
PA1762 peptidase C39 family; double glycine peptidase / 4 / 2.6 / 0.000057
PA1763 HUU / 3 / 3.7 / 0.000027
PA1874 large proline/threonine-rich protein / 4* / 2 / 0.000274
PA1875 TolC - type I secretion outer membrane protein / 4* / 2.3 / 0.000026
PA1876 HlyB - type I secretion system ATPase / 3* / 2 / 0.000058
PA1877 type I secretion membrane fusion protein, HlyD family / 4* / 2.1 / 0.000011
PA1910 TonB-dependent siderophore receptor / 2 / 2 / 0.000082
PA1911 FecR, Fe2+-dicitrate sensor / 2* / 2 / 0.000238
PA1912 RpoE, sigma 24 homolog / 2 / 2.4 / 0.000047
PA1946 RbsB, ABC-type sugar transport system / 4 / 3.7 / 0.000011
PA1947 RbsA, ribose transport protein / 2 / 2.5 / 0.000175
PA1948 RbsC, membrane protein, ABC ribose transporter / 3 / 2.7 / 0.000249
PA1949 RbsR, 62% similar to regulator for rbs operon / 3 / 2.2 / 0.000099
PA1974 HUU Porin / 4 / 11.7 / 0.000004
PA1975 HUU; part of operon with PA1976 / 4 / 6.3 / 0.000009
PA1976 BaeS, signal transduction histidine kinase / 4 / 8.2 / 0.000004
PA1977 HUU; in operon with PA1978 / 4 / 4.4 / 0.000004
PA1978 CitB, response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain / 4 / 8.2 / 0.000004
PA1979 signal transduction histidine kinase; part of operon with PA1980 / 4 / 6.3 / 0.000004
PA1980 CitB, Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain PhoB-like / 4 / 6.8 / 0.000004
PA1981 HUU, low complexity protein, pentapeptide repeat (AXLXX) / 4 / 9.8 / 0.000004
PA1982 Gcd, glucose dehydrogenase / 4 / 11 / 0.000004
PA1983 ExaB, cytochrome c550 / 4 / 9.7 / 0.000004
PA1984 BadH - betaine aldehyde dehydrogenase / 4 / 4.6 / 0.000004
PA1985 PqqA - pyrroloquinoline quinone biosynthesis / 4 / 4.8 / 0.000004
PA1986 PqqB - pyrroloquinoline quinone biosynthesis / 4 / 4.6 / 0.000004
PA1987 PqqC - pyrroloquinoline quinone biosynthesis / 4 / 4.9 / 0.000004
PA1988 PqqD - pyrroloquinoline quinone biosynthesis / 4 / 4.7 / 0.000004
PA1989 PqqE - pyrroloquinoline quinone biosynthesis / 4 / 4.6 / 0.00001
PA1990 dipeptidyl aminopeptidases/acylaminoacyl-peptidases) part of pqq operon / 4 / 5 / 0.000019
PA1991 iron-containing alcohol dehydrogenases / 4 / 4.4 / 0.000006
PA1992 BaeS, signal transduction histidine kinase / 3 / 5.3 / 0.000016
PA2011 LiuE, 3-hydroxy-3-methylglutaryl-CoA lyase / 3* / 4.2 / 0.000008
PA2012 LiuD, alpha subunit of geranoyl-CoA carboxylase / 3* / 7.7 / 0.000008
PA2013 LiuC, Enoyl-CoA hydratase / 3* / 5 / 0.000006
PA2014 LiuB, Methylmalonyl-CoA decarboxylase alpha subunit / 4* / 4.6 / 0.000036
PA2015 LiuA, Isovaleryl-CoA dehydrogenase / 4* / 4.1 / 0.000043
PA2016 LiuR, transcriptional regulator of liuABCDE genes, SoxR-like / 3* / 3.8 / 0.000006
PA2072 diguanylate cyclase GGDEF domain & EAL domain / 2 / 2 / 0.000016
PA2077 HUU, cytochrome C domain / 2 / 2.6 / 0.000146
PA2078 HUU, cytochrome C domain / 2 / 5.7 / 0.000497
PA2095 HUU, cytoplasmic protein / 3 / 2.3 / 0.000004
PA2107 HUU / 2 / 2 / 0.000022
PA2109 HUU, outer membrane protein / 2 / 2.3 / 0.000005
PA2110 DUR1, allophanate hydrolase subunit 2 / 2 / 2.8 / 0.000186
PA2111 DUR1, allophanate hydrolase subunit 1 / 2 / 3.3 / 0.000104
PA2112 homolog of lactam utilization protein B / 2 / 3 / 0.00002
PA2113 OpdO, pyroglutamate porin / 3 / 3.9 / 0.000006
PA2114 AraJ, arabinose efflux permease / 4 / 4.1 / 0.000013
PA2136 HUU / 2 / 2.5 / 0.00004
PA2137 AtoC, response regulator containing CheY-like receiver / 2 / 2.3 / 0.000006
PA2138 DNA ligase I, ATP-dependent / 2 / 2.7 / 0.000004
PA2139 HUU / 2 / 2.7 / 0.000004
PA2140 prokaryote metallothionein signature / 3 / 2.1 / 0.00004
PA2141 competence/damage-inducible protein CinA C-terminal domain / 3 / 2.3 / 0.000018
PA2142 FabG, 3-oxoacyl-(acyl-carrier-protein) reductase / 3 / 2 / 0.000074
PA2144 GlgP, glucan phosphorylase / 2 / 2 / 0.000002
PA2147 KatE, catalase / 2 / 2 / 0.000008
PA2153 GlgB, 1,4-alpha-glucan branching enzyme / 2 / 2.5 / 0.000002
PA2169 HUU / 3 / 2 / 0.000004
PA2170 HUU / 3 / 2.1 / 0.000007
PA2171 HUU / 3 / 2 / 0.000018
PA2172 glutamyl aminopeptidase / 3 / 2 / 0.000129
PA2173 HUU / 3 / 2 / 0.000004
PA2174 HUU / 3* / 2 / 0.00022
PA2178 HUU, membrane protein / 2 / 2.2 / 0.000004
PA2179 modification methylase, HemK family / 2 / 2.9 / 0.000006
PA2180 HUU / 3 / 2.1 / 0.000004
PA2181 glutamate-cysteine ligase family 2 / 2 / 2.6 / 0.000006
PA2184 HUU / 3 / 2 / 0.000004
PA2185 KatN, Mn-containing catalase / 2 / 2.2 / 0.000002
PA2186 HUU / 2 / 2 / 0.000003
PA2187 HUU, membrane protein / 2 / 2.2 / 0.000047
PA2188 probable alcohol dehydrogenase (Zn-dependent) / 2 / 2.1 / 0.000003
PA2189 ClpP, Protease subunit of ATP-dependent Clp proteases / 2 / 2 / 0.000004
PA2212 PdxA, Pyridoxal phosphate biosynthesis / 2 / 2 / 0.00002
PA2247 BkdA1, 2-oxoisovalerate dehydrogenase / 4* / 5.3 / 0.000004
PA2248 BkdA2, AcoB, 2-oxoisovalerate dehydrogenase / 4* / 4.5 / 0.000099
PA2249 BkdB, AceF, branched-chain alpha-keto acid dehydrogenase / 4* / 4.1 / 0.000109
PA2250 LpdV, dihydrolipoamide dehydrogenase / 4* / 4.3 / 0.000146
PA2268 PyrG, CTP synthase (UTP-ammonia lyase) / 3 / 6.3 / 0.000009
PA2302 EntF, non-ribosomal peptide synthetase / 2* / 2 / 0.000077
PA2338 UgpB, ABC-type sugar transport system / 4 / 7.3 / 0.000007
PA2339 UgpA, ABC-type sugar transport systems / 4 / 5.7 / 0.000004
PA2340 UgpE, ABC-type sugar transport system / 4 / 6.5 / 0.000004
PA2341 PotA - "polyamine ABC transporter, ATP-binding protein / 4 / 4.8 / 0.000006
PA2342 MtlD, mannitol-1-phosphate/altronate dehydrogenases / 4 / 4.3 / 0.000028
PA2343 Mtly, xylulose kinase / 2 / 3.5 / 0.0000042
PA2365 71% similar to 19.5 kDa protein Eip20, Edwardsiella ictaluri / 2* / 4.2 / 0.000004
PA2366 76% similar to 54.5 kDa protein Eip55, Edwardsiella ictaluri / 2* / 3.7 / 0.000004
PA2367 Hcp, hemolysin-coregulated protein / 2* / 3.4 / 0.000006
PA2368 HUU / 2* / 3.5 / 0.000219
PA2370 HUU / 2* / 2.5 / 0.000231
PA2371 probable ClpA/B-type protease / 2* / 2.8 / 0.000134
PA2372 HUU / 2* / 2.6 / 0.00002
PA2386 PvdA, pyoverdine biosynthesis / 3* / 3.2 / 0.000163
PA2393 Zn-dependent dipeptidase, pyoverdine biosynthesis / 3 / 5.6 / 0.000041
PA2394 PvdN, pyoverdine biosynthesis / 3* / 2.4 / 0.000072
PA2397 PvdE, pyoverdine biosynthesis / 3 / 2.5 / 0.000073
PA2398 FpvA, pyoverdine receptor / 3* / 2.7 / 0.000022
PA2418 Pirin-related protein / 2 / 2.3 / 0.000029
PA2419 PncA, amidases related to nicotinamidase / 4 / 2.5 / 0.000085
PA2535 Tas, predicted oxidoreductases / 4 / 5.9 / 0.000012
PA2552 CaiA, Acyl-CoA dehydrogenases / 4 / 4.7 / 0.000013
PA2553 PaaJ, Acetyl-CoA acetyltransferase / 4 / 7 / 0.000004
PA2554 FabG, 3-oxoacyl-(acyl-carrier-protein) reductase / 4* / 5.9 / 0.000005
PA2555 Acs, Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases / 4 / 6 / 0.000108
PA2556 AraC-type regulator / 2 / 2.4 / 0.000181
PA2557 FadD, CaiC, Acyl-CoA synthetases / 3 / 5.7 / 0.000043
PA2598 FMNH2-dependent monooxygenase / 2 / 2.7 / 0.000053
PA2601 LysR, transcriptional regulator / 2 / 2.4 / 0.000053
PA2602 cysteine dioxygenase type I / 3 / 3.3 / 0.000148
PA2634 AceA, Isocitrate lyase, glyoxylate shunt / 4* / 5 / 0.000003
PA2679 UbiE, methylase involved in ubiquinone/menaquinone biosynthesis / 3 / 3.3 / 0.000071
PA2691 Ndh, NADH dehydrogenase / 3 / 2 / 0.000007
PA2762 predicted enzyme of the cupin superfamily / 4 / 2 / 0.000067
PA2763 HUU / 2 / 2 / 0.00001
PA2764 MhpC, acyl transferase / 4 / 2.5 / 0.000007
PA2777 FocA, formate/nitrite family of transporters / 2 / 2 / 0.000065
PA2778 SunT, ABC-type bacteriocin / 3 / 2 / 0.000033
PA2779 HUU / 4 / 2.8 / 0.000004
PA2786 HUU / 3 / 2.8 / 0.000003
PA2830 HtpX, Zn-dependent protease with chaperone function / 2
PA2847 predicted permease / 2 / 4.7 / 0.00014
PA2862 LipA, lipases, serine active site / 4 / 8.9 / 0.000003
PA2863 LipH, lipase chaperone for LipA & LipC / 4 / 4.9 / 0.000016
PA2880 HUU, predicted membrane protein / 4 / 4.9 / 0.000022
PA2887 3-oxoacyl-(acyl-carrier-protein) reductase / 2 / 2.1 / 0.0004
PA2888 acetyl-CoA carboxylase / 2 / 2 / 0.000103
PA2889 CaiA, Acyl-CoA dehydrogenases / 3 / 2 / 0.000133
PA2938 UraA, xanthine/uracil permeases / 3 / 3.8 / 0.00026
PA3013 FadA - acetyl-CoA C-acyltransferase / 4 / 2 / 0.000121
PA3014 FadB, 3-hydroxyacyl-CoA dehydrogenase / 3 / 2 / 0.000004
PA3035 Gst, glutathione S-transferase / 3 / 4.5 / 0.000053
PA3036 HUU / 3 / 5.3 / 0.000008
PA3038 OprD, porin / 4 / 4.3 / 0.000004
PA3046 HUU / 3 / 2 / 0.000033
PA3079 AcrB/AcrD/AcrF family, efflux pump / 4 / 2.4 / 0.000083
PA3133 bacterial regulatory proteins, TetR family / 2 / 2.2 / 0.000015
PA3216 HUU,membrane / 4 / 2 / 0.000362
PA3221 CsaA, export-related chaperone / 4 / 2 / 0.000117
PA3232 exonuclease, ribonuclease T family / 2 / 2.7 / 0.000073
PA3233 predicted signal-transduction protein containing cAMP-binding and CBS domains / 4 / 4.5 / 0.00002
PA3234 DhlC, predicted symporter / 4 / 5.5 / 0.000003
PA3235 HUU, membrane protein / 4 / 5.2 / 0.000003
PA3267 1-acyl-sn-glycerol-3-phosphate acyltransferase / 3 / 2 / 0.000201
PA3277 FabG - "3-oxoacyl-(acyl-carrier-protein) reductase / 3 / 2.2 / 0.000026
PA3300 FadD2 long-chain-fatty-acid--CoA ligase / 4 / 2 / 0.000025
PA3356 GlnA, glutamine synthetase / 4 / 2.1 / 0.000005
PA3412 HUU / 3 / 3.3 / 0.000036
PA3415 probable dihydrolipoamide acetyltransferase / 3 / 2 / 0.00026
PA3416 AcoB, pyruvate/2-oxoglutarate dehydrogenase / 3 / 2 / 0.000083
PA3417 AcoA, Pyruvate/2-oxoglutarate dehydrogenase / 3 / 2 / 0.000005
PA3420 MalT, ATP-dependent transcriptional regulator / 2 / 2.8 / 0.000046
PA3421 HUU / 4 / 5.9 / 0.000029
PA3427 FabG, 3-oxoacyl-(acyl-carrier-protein) reductase, putative / 3 / 2.9 / 0.000077
PA3429 MhpC, predicted hydrolases or acyltransferases / 2 / 2.5 / 0.000135
PA3430 FucA - L-fuculose phosphate aldolase / 4 / 3.2 / 0.000082
PA3450 AhpC, peroxiredoxin / 3 / 3.4 / 0.000021
PA3460 RimK, family, alpha-L-glutamate ligases / 2 / 2.4 / 0.000002
PA3518 HUU / 2* / 5.3 / 0.000112
PA3519 HUU / 3* / 2.9 / 0.000063
PA3530 Bfd, bacterioferritin-associated ferredoxin / 4 / 2.4 / 0.000009
PA3535 outer membrane protein, probable serine protease / 3* / 2 / 0.000049
PA3566 HUU / 4 / 5 / 0.000004
PA3567 crotonyl-CoA reductase / 4 / 4.6 / 0.000004
PA3568 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases / 4 / 4.8 / 0.000003
PA3569 MmsB, 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases, Lipid metabolism / 4* / 2.4 / 0.000039
PA3570 methylmalonate-semialdehyde dehydrogenase / 4* / 2.5 / 0.000098
PA3581 GlpF, glycerol uptake facilitator / 2* / 4.4 / 0.000004
PA3582 GlpK, glycerol kinase / 3* / 2.5 / 0.000084
PA3709 probable major facilitator superfamily (MFS) transporter / 4 / 6.7 / 0.00002
PA3710 BetA, choline dehydrogenase / 4 / 3 / 0.000355
PA3719 HUU / 2 / 3 / 0.000355
PA3720 HUU / 3 / 2.6 / 0.000133
PA3841 ExoS / 2 / 2.8 / 0.000003
PA3931 NlpA, ABC-type metal ion transport system / 3* / 2.5 / 0.000003
PA3959 HUU / 2 / 2.5 / 0.000085
PA3960 HUU / 2 / 2.3 / 0.000128
PA3969 predicted Zn-dependent hydrolase / 2 / 2 / 0.000227
PA3990 HUU / 4* / 3 / 0.000082
PA3994 MhpC, Predicted acyltransferases / 4 / 3.4 / 0.000022
PA4023 ethanolamine permease / 4 / 2.1 / 0.000003
PA4024 ethanolamine ammonia-lyase / 4 / 2.4 / 0.000005
PA4054 RibB, 3,4-dihydroxy-2-butanone 4-phosphate synthase / 4* / 3.1 / 0.000115
PA4555 RibC, riboflavin synthase alpha chain / 3 / 3.6 / 0.000057
PA4094 transcriptional regulator AraC-type / 4 / 3.7 / 0.000023
PA4147 AcoR, Transcriptional activator of acetoin/glycerol metabolism / 3 / 5.1 / 0.000081
PA4148 FabG, dehydrogenases with different specificities / 2 / 3.9 / 0.00006
PA4149 ATP-NAD kinase / 2 / 3.3 / 0.00003
PA4150 AcoA, pyruvate/2-oxoglutarate dehydrogenase / 4 / 5.2 / 0.000032
PA4151 AcoB, pyruvate/2-oxoglutarate dehydrogenase complex / 4 / 6.6 / 0.000026
PA4152 MhpC, predicted hydrolases or acyltransferases / 4 / 3.7 / 0.000203
PA4153 Tdh - L-threonine 3-dehydrogenase / 4 / 3.6 / 0.000033
PA4198 CaiC, Acyl-CoA synthetases / 2 / 2.3 / 0.000197
PA4203 LysR, transcriptional regulator / 3 / 2.5 / 0.000041
PA4290 Tar, methyl-accepting chemotaxis protein / 3 / 3.5 / 0.000056
PA4306 Flp, flp pilus assembly protein, pilin / 2* / 2.4 / 0.000003
PA4336 ThiJ, putative intracellular protease/amidase / 3* / 2.1 / 0.000004
PA4337 HUU, lipoprotein / 2 / 2.3 / 0.000013
PA4338 predicted acyltransferases / 2 / 2 / 0.000016
PA4377 HUU / 3 / 2.2 / 0.000016
PA4436 transcriptional regulator, AraC-type / 2 / 2.1 / 0.000064
PA4437 HUU / 2 / 2.1 / 0.000097
PA4468 SodM, superoxide dismutase / 2* / 2 / 0.000202
PA4469 HUU / 3* / 2 / 0.000012
PA4470 FumC, fumarase / 2 / 4.7 / 0.000054
PA4515 PiuC, iron-regulated protein / 4* / 2 / 0.000021
PA4588 GdhA, Glutamate dehydrogenase/leucine dehydrogenase / 4 / 6.3 / 0.000014
PA4589 FadL, long-chain fatty acid transport protein / 3* / 2.8 / 0.000041
PA4590 alkane activator protein activator;Transport of small molecules / 4* / 7.5 / 0.000003
PA4605 HUU / 4 / 2 / 0.000025
PA4606 CstA; 80% similar to carbon starvation protein E. coli / 4 / 2.1 / 0.000004
PA4635 MgtC family, possible magnesium transport / 2 / 3.7 / 0.000022
PA4680 HUU / 4 / 4.9 / 0.000018
PA4681 HUU / 4 / 3 / 0.000039
PA4682 HUU / 4 / 2.9 / 0.000014
PA4696 IlvI, acetolactate synthase / 2 / 2.8 / 0.000016
PA4733 AcsA - acetate-CoA ligase / 4 / 3.1 / 0.000025
PA4787 transcriptional regulator, AraC-type / 3 / 2 / 0.000235
PA4813 LipC, lipase / 4* / 9.6 / 0.000023
PA4826 HUU / 3 / 3.7 / 0.000016
PA5112 EstA, lipase, G-D-S-L family, serine active site / 4* / 2.6 / 0.000015
PA5167 DctP, TRAP-type C4-dicarboxylate transport system / 4 / 3.2 / 0.000011
PA5168 DctM, TRAP-type C4-dicarboxylate transport system / 4 / 3.8 / 0.000016
PA5169 DctQ, TRAP-type C4-dicarboxylate transport system / 4 / 2.8 / 0.000034
PA5249 homoserine/threonine efflux protein / 3 / 2.8 / 0.000073
PA5312 BadH - betaine aldehyde dehydrogenase / 4 / 2.2 / 0.000004
PA5313 BioA - adenosylmethionine-8-amino-7-oxononanoate aminotransferase / 4 / 2 / 0.000028
PA5314 HUU, predicted enzyme of the cupin superfamily / 4 / 2 / 0.000067
PA5315 RpmG, ribosomal protein L33 / 4 / 2.2 / 0.000051
PA5316 RpmB, ribosomal protein L28 / 4 / 2 / 0.000089
PA5324 transcriptional regulator AraC-type / 4 / 2.9 / 0.00003
PA5325 protein involved in phenol degradation / 4 / 2.9 / 0.00003
PA5328 CycB, cytochrome c5 / 3 / 3.9 / 0.000361
PA5352 GlcG, possibly involved in utilization of glycolate and propanediol / 3 / 3.7 / 0.000058
PA5353 GlcF, glycolate oxidase subunit / 2 / 5.5 / 0.000004
PA5354 GlcE, glycolate oxidase subunit / 3 / 4.7 / 0.000017
PA5355 GlcD, glycolate oxidase subunit / 2 / 4.2 / 0.000004
PA5421 fdhA glutathione-independent formaldehyde dehydrogenase / 4 / 5 / 0.000004
PA5429 AspA, aspartate ammonia-lyase / 4 / 3.9 / 0.000017
PA5542 AmpC, Beta-lactamase class C and other penicillin binding proteins / 2 / 2.7 / 0.000111
PA5543 HUU / 3 / 2.4 / 0.000027
PA5544 TRAP transporter, 4TM/12TM fusion protein / 3 / 2.4 / 0.000117
PA5545 TRAP transporter solute receptor, TAXI family / 3 / 2.3 / 0.000024
PA5550 GlpR, transcriptional regulators of sugar metabolism / 4 / 3.6 / 0.000065
Total P. aeruginosa genes - 5567
Total # upregulated in all sets - 355 (6.3%)
154 - 4/4
92 - 3/4
112 - 2/4
58 of 358 - genes expressed at 36hrs also.
64 - lipid associated genes (Lipid metabolism related genes in Red)
29 - regulatory factor genes (Regulatory genes in Green)
13 - iron regulated genes (including plcB)
* indicates increased expression at 36 hrs also (value for this array is not included in average values above)