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. 2012 Jan 13;7(1):e29083. doi: 10.1371/journal.pone.0029083

Table 1. Time-course comparison of transcriptome and proteome changes in P. freudenreichii CIRM-BIA1T strain, for genes involved in metabolic categories CD, CE, DNA, E, L, Mi, Nt, and P.

Gene Fold change (log2)
Microarray RT-qPCR 2D
Name Locus tag Description Category 40 h 3 days 6 days 9 days P-value 3 days P-value 3 days 6 days 9 days P-value Spot No.a
ftsX PFREUD_09600 Cell division protein CD −0.9 −4.2 −3.7 −2.8 1.80E-05 −4.3 0.046
dpm PFREUD_10950 Dolichyl-phosphate β-D-mannosyltransferase CE 0.1 −2.1 −2.2 −1.9 1.10E-04 0.8 1.1 0.9 0.001 45
gyrB1 PFREUD_12820 DNA gyrase subunit B DNA −0.4 −1.1 −0.3 −0.3 0.432 −1.7 0.05
nuoC PFREUD_05180 NADH-quinone oxidoreductase chain C E 0 −3.6 −3.2 −3.2 3.10E-04 1 1.2 0.8 8.40E-05 46
nuoD PFREUD_05190 NADH-quinone oxidoreductase chain D E 0.3 −4 −3.3 −3.8 0.002 −0.8 −1 −0.9 0.003 2
atpA PFREUD_10470 ATP synthase subunit α E −0.8 −3.6 −3.4 −3.9 2.90E-04 0.4 0.8 0.6 0.013 22
sdhC2 PFREUD_14320 Succinate dehydrogenase cytochrome B-558 subunit E 0.8 −2.1 −2.1 −1.4 0.002 −3.3 0.025
acs PFREUD_23780 Fatty-acyl-CoA synthase L −0.3 −0.3 −0.3 −0.2 0.526 0.4 1.1 0.7 0.046 19
sodA PFREUD_06110 Fe/Mn superoxide dismutase Mi 0.6 1.4 0.3 −0.5 0.064 0.6 0.8 0.6 0.003 47
NC PFREUD_01850 Dihydroorotate dehydrogenase Nt 0.1 0.5 0.7 0.5 0.595 1.6 0.9 0.3 0.02 40
guaB1 PFREUD_06480 Inosine-5 -monophosphate dehydrogenase Nt 0.1 −1.1 −1.3 −1.3 0.002 1.2 0.5 0.2 0.043 21
guaB2 PFREUD_06490 Inosine-5 -monophosphate dehydrogenase Nt 0.1 0.1 0.1 0 0.899 0.8 0.7 0.6 0.044 42
guaA PFREUD_06680 GMP synthase Nt −0.4 −1 −1.1 −1.5 0.011 0.5 0.9 0.8 0.006 24
glmU PFREUD_17410 UDP-N-acetylglucosamine pyrophosphorylase Nt 0 −0.3 −0.1 −0.4 0.79 0.6 1 0.4 0.013 23
rplL PFREUD_05580 50S ribosomal protein L7/L12 P −0.6 −0.5 −1 −1.8 0.225 −0.7 −1 −1.1 0.001 8
tuf PFREUD_05650 Elongation factor Tu P −0.1 −2.3 −2.4 −2.3 0.001 −1.9 0.066 −1.7 −1.4 −1.3 4.70E-05 3
metG PFREUD_06960 Methionyl-tRNA synthetase P −0.1 −1.4 −1.2 −1.2 0.011 0.9 0.3 0.9 0.034 20
alaS PFREUD_11560 Alanyl-tRNA synthetase P −0.6 −1.3 −1 −1.1 0.013 0.4 0.4 −0.9 0.035 10
a

Spot number (see Table S4 and Fig. 2).

Bold characters indicate genes that are differentially expressed according to microarray experiments (P<0.05 and |fold change|>1 for at least one sampling time) and RT-qPCR (P<0.05) experiments.