TABLE 1.

AI-2-regulated genes (density-dependent analysis)a

ClusterGeneDescriptionFold change in expressionb
S. mutans wild type luxS mutant luxS mutant with Al-2 added
AvgMinimumMaximumAvgMinimumMaximumAvgMinimumMaximum
4SMU.53Conserved hypothetical protein1,471−1,0001,8791,954−1,424 3,941 −1,0302,466 2,063
SMU.74Conserved hypothetical protein−1,075−1,8071,409 5,724 −1,087 24,991 3,562 16,502 1,098
SMU.82Heat shock protein, DnaK (HSP-70), dnaK −1,3732,052 1,1221,458−1,179 2,559 2,914 5,675 1,014
SMU.153Hypothetical protein−1,216−1,8811,1351,792−1,132 3,606 −1,2602,180 1,439
SMU.17030S ribosomal protein S9NDc NDND 2,591 −1,117 7,716 −1,0333,187 4,252
SMU.188c Putative 33-kDa chaperonin (heat shock protein 33)1,144−1,5931,815NDNDND2,491 12,862 1,055
SMU.197cHypothetical protein−1,432−1,9161,0931,679−1,117 3,978 2,544 7,726 1,148
SMU.357 30S ribosomal protein S12NDNDND 5,549 −1,000 15,947 2,465 9,457 1,121
SMU.422Ribosome binding factor A−1,2372,059 1,2441,643−1,404 3,045 2,520 6,866 1,219
SMU.436cPutative transposase, ISSmu1NDNDND1,558−1,347 4,292 2,204 7,655 3,710
SMU.522Conserved hypothetical protein−1,290−1,7961,2141,662−0,998 2,719 −1,1752,188 1,927
SMU.643Putative esterase1,173−1,0981,4091,441−1,275 2,921 −1,2972,356 1,517
SMU.750c Hypothetical protein1,543−1,007 2,615 2,359 −0,999 5,337 −1,5953,799 1,360
SMU.798cHypothetical protein1,120−1,1531,5831,924−1,376 4,867 −1,5033,287 1,207
SMU.1589cPutative hexosyltransferase−1,043−1,5321,309 2,363 −1,240 7,787 −1,3252,887 1,357
SMU.1667 Putative branched chain amino acid ABC transporter, permease protein, livM−1,2212,266 1,2021,784−1,903 2,893 −1,6168,290 1,114
SMU.1741Putative malonyl-CoA (acyl-carrier-protein) transacylase, fabD −1,046−1,2691,149 2,535 −1,176 4,645 −1,4162,342 1,480
SMU.2114cPutative transcriptional regulator1,136−1,0421,6471,806−1,414 5,562 −1,6044,275 1,290
SMU.2153c Putative peptidase−1,197−1,7361,2311,569−1,101 2,481 −1,3292,074 1,110
SMU.2154cPutative peptidase−1,2672,842 1,2201,824−1,206 4,450 −1,5244,096 1,399
6SMU.15Putative cell division protein FtsH, ftsH 1,010−1,2751,2576,112 17,995 1,0551,6922,080 9,377
SMU.31Hypothetical protein2,056 3,010 1,000−1,8022,881 1,0001,272−1,312 2,091
SMU.44Conserved hypothetical protein; possible DNA mismatch repair protein1,288−1,1071,958−1,5292,146 1,2751,836−1,000 3,865
SMU.48Putative phosphoribosyl glycinamide synthetase, purD NDNDND2,225 5,274 1,434 3,975 −1,076 20,928
SMU.97ATP synthetase (UTP-ammonia lyase), pyrG 1,271−1,0791,97411,305 57,739 1,919NDNDND
SMU.135Putative transcriptional regulator, mleR 1,371−1,072 2,331 2,795 4,568 1,0411,864−1,709 9,661
SMU.184Putative ABC transporter, metal binding lipoprotein; (Lral family), sloC1,346−1,329 2,895 2,045 4,889 1,647NDNDND
SMU.341Putative deoxyribonuclease1,345−1,079 2,395 2,407 3,948 1,0111,0092,112 2,000
SMU.391cConserved hypothetical protein−1,5212,253 1,068−1,8614,504 1,729 2,408 −1,097 7,508
SMU.408Putative permease1,389−1,035 2,042 3,746 6,949 1,1191,809−1,271 7,328
SMU.81830S ribosomal protein S211,066−1,7411,752−1,7113,182 −1,0081,631−1,549 3,470
SMU.1168 Putative transcriptional regulator−1,1522,803 1,6522,180 9,190 −1,0011,605−1,731 3,337
SMU.1646cConserved hypothetical protein, possible hemolysis-inducing protein−1,2472,211 1,187−1,7094,734 1,0931,445−1,999 2,961
SMU.1847Putative translation elongation factor P, efp 1,058−1,2871,490−1,4623,052 1,0421,186−1,4421,682
SMU.1954Putative chaperonin GroEL, groEL NDNDND2,671 5,386 1,0001,1542,264 2,230
SMU.200750S ribosomal protein L15, rl15NDNDND−1,4232,458 −1,0031,614−1,947 3,127
SMU.201150S ribosomal protein L6 (BL10), rl61,211−1,094 2,282 −1,6142,571 −1,0011,2743,334 2,329
  • a Thirty-eight genes were found to be significantly up- or downregulated (Fig. 2, clusters 4 and 6) in the luxS mutant during growth and reverted to the wild-type pattern of expression upon addition of AI-2. A gene appears in this list if its expression was changed more than twofold for at least one time point during growth in any of the three experimental treatments.

  • b Avg, average value for up to six technical replicates. Genes which were also detected in the TCPSAM analysis (see Table 2) and n-fold change in values above the cutoff of 2.0 are shown in bold.

  • c ND, not detectable (expression of gene at background level).