Skip to main content
. 2005 Aug;187(15):5224–5235. doi: 10.1128/JB.187.15.5224-5235.2005

TABLE 3.

Hierarchical clusters of genes showing significant differences in gene expression after ANOVA statistical analysis in the lamA mutant versus wild-type strain during early, mid-, and late logarithmic growth

Cluster and ORFa Geneb Description No. of clones Change (fold)c
E Md L
Cluster 1
    lp_0184 sacK1 Fructokinase 2 1.1 0.0 −12.1
    lp_0185 pts1BCA Sucrose PTS, EIIBCAe 3 1.0 −0.2 −13.6
    lp_0187 sacA β-Fructofuranosidase 1 1.1 −0.3 −18.5
    lp_0188 sacR Sucrose operon repressor 1 0.3 1.6 −14.6
    lp_0189 agl2 α-Glucosidase 1 0.3 1.6 −14.6
    lp_0263 treA α,α-Phosphotrehalase 1 −2.2 0.4 −15.3
    lp_0264 pts4ABC PTS, trehalose-specific IIBC component 2 −1.9 0.4 −13.9
    lp_0435 Transcription regulator, GntR family 1 1.8 0.4 −8.2
    lp_0436 pts7C Cellobiose PTS, EIIC 1 1.8 0.4 −8.2
    lp_3480 galT UTP-hexose-1-phosphate uridylyltransferase 1 1.1 1.4 −10.6
    lp_3481 galE4 UDP-glucose 4-epimerase 1 1.1 1.4 −10.6
    lp_3482 galK Galactokinase 1 1.4 −0.2 −21.9
Cluster 2
    lp_0525 kup1 Potassium uptake protein 1 −2.8 −3.9 −2.7
    lp_0526 carB Carbamoyl-phosphate synthase, large subunit 1 −2.8 −3.9 −2.7
    lp_0683 Prophage P1 protein 60 1 0.5 −4.5 −3.7
    lp_0684 Prophage P1 protein 61 1 0.5 −4.5 −3.7
    lp_0925 Acyltransferase 1 −0.7 −4 −5.7
    lp_0926 Integral membrane protein 1 −8.8 −11 −6.1
    lp_0927 Hypothetical protein 2 −8.0 −10.4 −6.7
    lp_0928 Hypothetical protein 2 −8.0 −10.4 −6.7
    lp_0929 asp1 Alkaline shock protein 2 −8.0 −10.4 −6.7
    lp_0930 asp2 Alkaline shock protein 2 −8.0 −10.4 −6.7
    lp_0931 hpaG 2-Hydroxyhepta-2,4-diene-1,7-dioateisomerase/5-carboxymethyl-2-oxo-hex-3-ene-1,7-dioatedecarboxylase (putative) 1 −7.1 −9.8 −7.3
    lp_2658 Glycosyltransferase (putative) 2 −4.5 −3.8 −3.2
    lp_2743 ABC transporter, ATP-binding protein 1 −7.6 −10.5 −8
    lp_2744 ABC transporter, permease protein 1 −7.6 −10.5 −8
    lp_3045 Short-chain dehydrogenase/oxidoreductase 1 −6.6 −4.8 −3.1
    lp_3047 Hypothetical protein 1 −6.6 −4.8 −3.1
    lp_3575 Integral membrane protein 1 −6.7 −11 −7.5
    lp_3577 Integral membrane protein 2 −4.6 −3.8 −3.7
    lp_3578 kat Catalase 4 −4.4 −3.8 −3.6
    lp_3580 lamA Response regulator; homologue of accessory gene 3 −2.7 −4.7 −2.8
Regulator protein A
    lp_3581 lamC Histidine protein kinase; sensor protein 3 −2.7 (−2.3) −4.7 (−2.8) −2.8 (−2.7)
    lp_3581a lamD Homologue of accessory gene regulator protein D, peptide pheromone precursor 1 −2.4 −4.7 −2.7
    lp_3582 lamB Homologue of accessory gene regulator protein B 1 −2.4 −4.7 −2.7
    lp_3583 clpL ATP-dependent Clp protease, ATP-binding subunit ClpL 3 −21.6 −27.6 −11.7
    lp_3586 lox Lactate oxidase 2 −24.5 −28.7 −22.7
Cluster 3
    lp_1197 cps2A Exopolysaccharide biosynthesis protein 1 40.5 (21.7) 16.6 (9.9) 19.0 (21.7)
    lp_1198 cps2B Exopolysaccharide biosynthesis protein; chain length determinator Wzz 2 28.9 16.6 16.1
    lp_1199 cps2C Exopolysaccharide biosynthesis protein 1 17.2 16.5 13.2
    lp_1200 galE2 UDP-glucose 4-epimerase 3 26.6 14.3 18.5
    lp_1201 cps2E Priming glycosyltransferase 3 26.6 14.3 18.5
    lp_1202 cps2F Glycosyltransferase 2 37.0 12.5 13.3
    lp_1203 cps2G Glycosyltransferase 2 38.5 11.1 11.3
    lp_1204 cps2H Polysaccharide polymerase 2 28 (37) 7.8 (10.4) 8.1 (12.4)
    lp_1205 cps2I Repeat unit transporter 3 19.2 3.7 4.4
    lp_1206 cps2J Glycosyltransferase 1 18 2.6 3.6
    lp_1207 Hypothetical protein 1 11.6 1.9 3.4
    lp_1208 Hypothetical protein 1 11.6 1.9 3.4
    lp_1210 Hypothetical protein 1 5.5 0.7 1.3
    lp_1211 Hypothetical protein 1 5.5 0.7 1.3
Cluster 4
    lp_0254 cysE Serine O-acetyltransferase 2 −0.1 5.5 5.4
    lp_0255 metC1 Cystathionine β-lyase 3 −0.4 5.8 5.4
    lp_0256 cysK Cysteine synthase 2 −0.6 5.9 5.7
    lp_2371 pyrP Uracil transport protein 1 0.6 13.2 0.7
    lp_2684 araT2 Aromatic amino acid-specific aminotransferase 2 0.6 0.8 19
    lp_2685 dapA2 Dihydrodipicolinate synthase 2 0.6 0.8 19
    lp_2698 pyrF Orotidine-5′-phosphate decarboxylase 1 −0.4 34.6 −0.7
    lp_2699 pyrD Dihydroorotate oxidase 2 −0.6 46.6 −0.7
    lp_2700 pyrAB Carbamoyl-phosphate synthase, pyrimidine specific, large chain 4 0 59.2 −0.4
    lp_2701 pyrAA Carbamoyl-phosphate synthase, pyrimidine specific, small chain 4 0.6 69.9 −0.2
    lp_2702 pyrC Dihydroorotase 3 1 67.1 −0.3
    lp_2703 pyrB Aspartate carbamoyltransferase 1 1 11.3 0
    lp_2704 pyrR1 Pyrimidine operon regulator 1 1 11.3 0
a

Gene lp_ number from the Lactobacillus plantarum WCFS1 genome project (http://www.cmbi.kun.nl/lactobacillus).

b

Previously reported gene name.

c

Average change in the lamA mutant versus the wild-type strain during early (E), mid- (M), and late (L) logarithmic growth. Average of four arrays unless specified otherwise. Average of all significant clones encoding the gene. The values in parentheses are the fold changes determined by real-time RT-PCR.

d

Average of three arrays instead of four arrays.

e

PTS, phosphotransferase system; EIIBCA, enzyme IIBCA.