Table 1

KinB regulon genes with decreased expression due to rpoN deletion

Gene group and PA locusGeneProductFold changeSigma dependencea
Alginate and related genes
    PA0762algUSigma factor AlgUNScRpoN, AlgU
    PA0763mucAAnti-sigma factor MucANSRpoN, AlgU
    PA0764mucBNegative regulator for alginate biosynthesis MucB−2.8RpoN, AlgU
    PA0765mucCPositive regulator for alginate biosynthesis MucC−2.3RpoN, AlgU
    PA0766mucDSerine protease MucD precursor−2.8RpoN, AlgU
    PA3540algDGDP-mannose 6-dehydrogenase AlgD−71.6RpoN, AlgU
    PA3541alg8Alginate biosynthesis protein Alg8−13.9RpoN, AlgU
    PA3542alg44Alginate biosynthesis protein Alg44−13.0RpoN, AlgU
    PA3543algKAlginate biosynthetic protein AlgK precursor−16.5RpoN, AlgU
    PA3544algEAlginate production outer membrane protein AlgE−13.8RpoN, AlgU
    PA3545algGAlginate-c5-mannuronan-epimerase AlgG−12.6RpoN, AlgU
    PA3546algXAlginate biosynthesis protein AlgX−12.9RpoN, AlgU
    PA3547algLPoly(beta-d-mannuronate) lyase precursor AlgL−20.2RpoN, AlgU
    PA3548algIAlginate O-acetyltransferase AlgI−13.7RpoN, AlgU
    PA3549algJAlginate O-acetyltransferase AlgJ−15.0RpoN, AlgU
    PA3550algFAlginate O-acetyltransferase AlgF−25.0RpoN, AlgU
    PA3551algAPhosphomannose isomerase/guanosine 5′-diphospho-d-mannose pyrophosphorylase−46.8RpoN, AlgU
    PA4446algWRegulated protease AlgW−11.1RpoN
    PA5322algCPhosphomannomutase AlgC−4.5RpoN, AlgU
    PA5483algBTwo-component response regulator AlgB−3.0RpoN, AlgU
    PA3692lptFLipotoxin F, LptF−5.9RpoN, AlgU
PA21XX metabolic operon genes
    PA2134Hypothetical protein−14.6RpoN
    PA2135Probable transporter−4.4RpoN
    PA2136Hypothetical protein−2.2RpoN
    PA2137Hypothetical protein−4.3RpoN
    PA2138Probable ATP-dependent DNA ligase−3.3RpoN
    PA2139Hypothetical protein−3.8RpoN
    PA2140Probable metallothionein−2.8RpoN
    PA2141Hypothetical protein−3.9RpoN
    PA2142yhxCProbable short-chain dehydrogenase−3.7RpoN
    PA2143Hypothetical protein−16.1RpoN
    PA2144glgPGlycogen phosphorylase−8.2RpoN
    PA2145Hypothetical protein−4.6RpoN
    PA2146Conserved hypothetical protein−4.2RpoN, AlgU
    PA2147katECatalase HPII−34.3RpoN, AlgU
    PA2148Conserved hypothetical protein−7.6RpoN
    PA2149Hypothetical protein−10.3RpoN
    PA2150Conserved hypothetical protein−8.5RpoN
    PA2151Conserved hypothetical protein−10.6RpoN
    PA2152Probable trehalose synthase−8.8RpoN
    PA2153glgB1,4-Alpha-glucan branching enzyme−10.2RpoN
    PA2154ybhNConserved hypothetical protein−4.4RpoN
    PA2155ybhOProbable phospholipase−6.7RpoN
    PA2156ybhPConserved hypothetical protein−5.9RpoN
    PA2157Hypothetical protein−5.2RpoN
    PA2158Probable alcohol dehydrogenase (Zn dependent)−10.3RpoN
    PA2159Conserved hypothetical protein−13.3RpoN
    PA2160glgXProbable glycosyl hydrolase−14.8RpoN
    PA2161Hypothetical protein−14.3RpoN, AlgUb
    PA2162Probable glycosyl hydrolase−9.5RpoN
    PA2163Hypothetical protein−10.6RpoN
    PA2164Probable glycosyl hydrolase−14.1RpoN
    PA2165glgAProbable glycogen synthase−10.5RpoN, AlgU
    PA2167Hypothetical protein−2.6RpoNb
    PA2168Hypothetical protein−2.5RpoN
    PA2169Hypothetical protein−20.9RpoN
    PA2170Hypothetical protein−40.3RpoN, AlgU
    PA2171Hypothetical protein−13.9RpoN, AlgU
    PA2172Hypothetical protein−23.1RpoN, AlgUb
    PA2173Hypothetical protein−16.4RpoN, AlgU
    PA2175Hypothetical protein−4.9RpoN
    PA2176Hypothetical protein−4.2RpoN, AlgU
    PA2178Hypothetical protein−5.7RpoN
    PA2179Hypothetical protein−8.8RpoN
    PA2180Hypothetical protein−16.0RpoN
    PA2181Hypothetical protein−4.9RpoN
    PA2182Hypothetical protein−2.6RpoN
    PA2183Hypothetical protein−7.5RpoN
    PA2184yciEConserved hypothetical protein−18.7RpoN
    PA2185katNNonheme catalase KatN−9.7RpoN
    PA2186Hypothetical protein−3.1RpoN
    PA2187Hypothetical protein−10.7RpoN
    PA2188Probable alcohol dehydrogenase (Zn dependent)−3.5RpoN
    PA2190Conserved hypothetical protein−3.0RpoN
    PA2192Conserved hypothetical protein−9.3RpoN
Other genes
    PA2416treAPeriplasmic trehalase precursor−7.1RpoN
    PA1471Extracellular hypothetical−31.7RpoN
    PA4880Probable bacterioferritin−16.1RpoN, AlgU
    PA4171Probable cytoplasmic protease−11.8RpoN
    PA0985Pyocin S5−5.0RpoN
    PA0355Cytoplasmic protease PfpI−5.0RpoN, AlgU
    PA5119glnAGlutamine synthetase−2.6RpoN
    PA0298spuBProbable glutamine synthetase−2.5RpoN, AlgU
  • a Sigma factor dependence was determined by selecting all genes downregulated and then filtering genes that were either dependent on AlgU (as ascertained by Tart et al. [50]) and RpoN or only RpoN.

  • b Wu et al. (61) indicated that these genes are upregulated in strain PAK mucA22 and are therefore AlgU dependent.

  • c NS, nonsignificant.