TABLE 2.

Relative fold changes of transcript amounts of genes that encode ribosomal proteins, AARSs, and amino acid biosynthetic enzymes in response to sublethal concentrations of translation inhibitors

Functional category and geneProteinEntry no. in R6 genome databaseAvg relative fold changea
ErmbCmbPurbTetb
Ribosomal proteins
    rpsD30S ribosomal protein S4spr00781.91.11.12.8
    rpsJ30S ribosomal protein S10spr01871.41.62.11.8
    rplC50S ribosomal protein L3spr01881.51.52.01.8
    rplD50S ribosomal protein L4spr01891.61.82.02.0
    rplW50S ribosomal protein L23spr01901.61.72.12.0
    rplB50S ribosomal protein L2spr01911.61.72.01.9
    rpsS30S ribosomal protein S19spr01921.71.82.12.1
    rplV50S ribosomal protein L22spr01941.82.42.11.9
    rplP50S ribosomal protein L16spr01961.72.02.01.8
    rpmC50S ribosomal protein L29spr01971.72.02.01.7
    rplX50S ribosomal protein L24spr02001.92.42.02.2
    rplE50S ribosomal protein subunit L5spr02011.72.12.02.0
    rplF50S ribosomal protein subunit L6spr02041.72.02.02.1
    rplR50S ribosomal protein L18spr02051.61.92.01.9
    rplK50S ribosomal protein L11spr05551.32.21.81.6
    rpsP30S ribosomal protein S16spr06821.41.7−1.12.1
    rpmI50S ribosomal protein L35spr08621.32.31.72.3
    rplT50S ribosomal protein L20spr08631.62.91.93.2
    rplJ50S ribosomal protein L10spr12121.01.71.61.9
    rpsR30S ribosomal protein S18spr13942.32.41.92.9
AARSs
    serSSeryl-tRNA synthetasespr0372−1.9−2.2−1.8−2.0
    valSValyl-tRNA synthetasespr0492−3.0−2.1−1.5−2.5
    pheSPhenylalanyl-tRNA synthetase alpha chainspr0507−13.2−4.7−2.3−13.5
    pheTPhenylalanyl-tRNA synthetase beta chainspr0509−2.7−2.4−2.1−4.0
    glySGlycyl-tRNA synthetase beta chainspr1328−2.2−1.9−1.4−2.3
    glyQGlycyl-tRNA synthetase alpha chainspr1329−2.5−2.8−1.8−2.7
    thrSThreonyl-tRNA synthetase 1spr1472−2.3−1.9−1.2−2.1
    ileSIsoleucyl-tRNA synthetasespr1502−3.6−2.4−1.5−3.3
    tyrSTyrosyl-tRNA synthetase 1spr1910−2.2−2.0−1.4−1.5
    hisSHistidyl-tRNA synthetasespr1931−2.2−1.5−1.4−1.7
Translation factors
    prfCPeptide chain release factor 3spr03961.22.01.2−1.1
    infCTranslation initiation factor 3spr08611.42.11.82.4
Amino acid biosynthesis
    aspCAspartate aminotransferasespr0035−1.8−2.1−1.4−1.4
    ilvNAcetolactate synthase small subunitspr0402−3.2−3.3−3.2−5.1
    ilvCKetol acid reductoisomerasespr0403−2.2−2.9−3.4−3.2
    metETetrahydropteroyltriglutamate methyltransferasespr0514−6.5−8.1−4.2−5.4
    metF5,10-Methylenetetrahydrofolate reductasespr0515−4.5−3.8−3.5−3.6
    ilvEBranched-chain-amino-acid transaminasespr0758−3.1−2.5−2.3−3.9
    asdAspartate beta-semialdehyde dehydrogenasespr0918−3.0−3.1−2.5−3.8
    dapADihydrodipicolinate synthasespr0919−2.1−2.2−2.9−2.2
    glyASerine hydroxymethyltransferasespr0928−2.0−1.7−1.4−1.2
    metY-truncationO-Acetylhomoserine sulfhydrylase, truncationspr1095−3.5−5.5−2.9−2.8
    leuD-truncation3-Isopropylmalate dehydratase small subunit, truncationspr11332.01.21.51.2
    gdhANADP-specific glutamate dehydrogenasespr1181−3.1−3.5−1.7−2.0
    metBCystathionine gamma-synthasespr1377−2.9−3.2−2.1−1.8
    metAHomoserine O-succinyltransferasespr1434−2.1−1.4−1.1−1.8
    trpATryptophan synthase alpha chainspr1631−2.0−2.0−1.3−2.0
    trpCIndole-3-glycerol-phosphate synthasespr1634−2.2−2.1−1.3−2.0
    trpDAnthranilate phosphoribosyltransferasespr1635−2.4−2.4−1.4−2.3
    trpGAnthranilate synthase component II (glutamine amido-transferase)spr1636−5.1−6.1−6.0−12.0
    ilvDDihydroxyacid dehydratasespr1935−2.5−2.2−1.8−1.8
  • a Microarray analyses were performed as described in Materials and Methods. Only genes whose transcript amounts showed a relative change of ≥2-fold in two independent experiments in response to at least one of the translation inhibitors are listed (see Materials and Methods). Negative values indicate a decrease in average relative transcript amount.

  • b Erm, erythromycin; Cm, chloramphenicol; Pur, puromycin; Tet, tetracycline, at concentrations shown in Table 1.