TABLE 1.

Differential expression of selected ORFs

Gene type and descriptionLocusExpression, 1st replicateExpression, 2nd replicate
Log2 ratio intensity ± SDFoldLog2 ratio intensity ± SDFold
Chaperone-related genes
    Small heat shock protein (class I)PF18832.95 ± 0.34>7.72.80 ± 0.12>6.9
    VAT homologPF18822.78 ± 0.186.91.89 ± 0.043.7
    VAT homologPF09632.21 ± 0.274.61.45 ± 0.052.7
    Thermosome, single subunitPF19742.00 ± 0.25>4.02.07 ± 0.16>4.2
    Prefoldin homolog (beta subunit)PF0380−0.76 ± 0.19−1.7−1.02 ± 0.03−2.0
ATP-dependent proteases
    Proteasome, subunit beta (PsmB-1)PF14041.03 ± 0.332.00.98 ± 0.052.0
    Proteasome, subunit beta (PsmB-2)PF01590.89 ± 0.211.90.47 ± 0.051.4
    ATP-dependent Regulatory Subunit (PAN)PF01150.25 ± 0.161.2−0.12 ± 0.05−1.1
    ATP-dependent LA (Lon)aPF0467−1.53 ± 0.24−2.9−0.38 ± 0.14>−1.3
    Proteasome, subunit alpha (PsmA)PF1571−1.96 ± 0.28−3.9−1.16 ± 0.03−2.2
ATP-independent proteases and peptidases
    Subtilisin-like proteasePF06882.81 ± 0.317.04.04 ± 0.0716.5
    ArgE/peptidasePF11852.18 ± 0.224.51.89 ± 0.053.7
    HtpX heat shock proteinPF15972.16 ± 0.104.51.60 ± 0.043.0
    Similar to endo-1,4-beta-glucanase (ytoP)PF18611.67 ± 0.233.21.21 ± 0.072.3
    D-aminopeptidasePF19241.52 ± 0.182.91.96 ± 0.053.9
    Signal sequence peptidase I, SECIIPF03131.10 ± 0.23b2.11.43 ± 0.052.7
    Methionine aminopeptidase (MAP) (Pep M)PF0541−1.00 ± 0.15−2.00.41 ± 0.031.3
    Putative proline dipeptidasePF0747−1.18 ± 0.21−2.30.32 ± 0.021.3
    Heat shock protein XPF1597−1.18 ± 0.31−2.3−0.58 ± 0.05−1.5
    Carboxypeptidase IPF0456−1.27 ± 0.19−2.4−2.26 ± 0.03−4.8
    PyrolysinPF0287−2.29 ± 0.19>−4.9−1.53 ± 0.05−2.9
Glycoside hydrolases
    Beta-glucosidase (CellA)PF00734.18 ± 0.2018.13.25 ± 0.099.5
    Putative methyltransferase (deacetylase)PF01373.47 ± 0.2811.11.83 ± 0.013.6
    Endo-beta-1,3-glucanase (Lam16)PF00762.67 ± 1.136.41.93 ± 0.153.8
    Chitinase (Chi18A)PF12342.14 ± 0.294.42.62 ± 0.116.2
    Beta-galactosidase precursor Gal35 (put.)PF03631.72 ± 0.213.31.85 ± 0.033.6
    Alpha amylase (Amy57)PF02721.64 ± 0.563.1−1.34 ± 0.07−2.5
    Beta-mannosidase (Man 1)PF12081.46 ± 0.162.81.25 ± 0.032.4
    Put. alpha-dextrin endo-1,6-α-glucosidasePF11081.34 ± 0.272.51.59 ± 0.053.0
    Chitinase (Chi18B)PF12331.26 ± 0.672.42.87 ± 0.147.3
    Beta-glucosidase (CellB)PF04421.17 ± 0.232.30.39 ± 0.051.3
Other
    Trehalose/maltose binding protein (malE)PF17392.69 ± 0.176.51.29 ± 0.062.4
    Spermidine synthasePF01271.41 ± 0.282.71.99 ± 0.024.0
    Recombinase, radAPF19261.39 ± 0.20>2.61.02 ± 0.042.0
    Putative sugar binding protein (malE-like)PF19381.34 ± 0.192.5−1.48 ± 0.21−2.8
    Putative trehalose synthasePF17421.29 ± 0.312.40.78 ± 0.081.7
    Recombinase, radBPF00210.46 ± 0.321.4−0.24 ± 0.07−1.2
    Damage-inducible protein (dinF homolog)PF18500.08 ± 0.23b1.1−0.46 ± 0.06−1.4
  • a Archaeal Lon proteins are missing an ATP-binding domain (43).

  • b P < 0.02 (P < 0.01 for all other reported observations).