TABLE 1

Global temporal profile of responses to CSP in TSBa

Gene IDbMean fold changecAnnotationd
UA159ΔcomS mutant, 100 min
10 min100 min
Early response
    SMU.15051.862.440.9Hypothetical protein, NlmA, mutacin IV A
    SMU.15134.741.146.2Hypothetical protein, NlmB, mutacin IV B
    SMU.15222.436.442.0Hypothetical protein, mutacin IV immunity
    SMU.15317.625.925.6Hypothetical protein
    SMU.42338.849.554.3Hypothetical protein, NlmD, mutacin VI
    SMU.4243.15.93.1CopY
    SMU.4262.95.53.6Copper-transporting ATPase, CopA
    SMU.4272.742.3Putative copper chaperone, CopZ
    SMU.9253.810.36.4Hypothetical protein, ImmB, immunity protein
    SMU.1902c2.12.51.4Hypothetical protein, putative bacteriocin, BsmK
    SMU.1903c12.41624.3Hypothetical protein
    SMU.1904c21.149.761.1Hypothetical protein
    SMU.1905c26.447.843.8Putative bacteriocin secretion protein, BsmL
    SMU.1906c21.33445.1Hypothetical protein, BsmB
    SMU.1908c16.457.135.8Hypothetical protein
    SMU.1909c17.655.185.3Hypothetical protein, immunity protein
    SMU.1910c15.539.261.6Hypothetical protein
    SMU.1912c16.429.967.0Hypothetical protein
    SMU.1913c13.629.349.4Putative immunity protein, BlpL like, ImmA
    SMU.1914c15.917.431.0Hypothetical protein, NlmC, CipB, mutacin V
Late response
 comS 1.712.7ComS, pheromone
    SMU.641.25.6−1.2Holliday junction DNA helicase RuvB
    SMU.651.24.4−1.1Putative protein tyrosine phosphatase
    SMU.661.12.6−1.2Hypothetical protein
    SMU.67−1.02.3−1.1Putative acyltransferase
    SMU.681.52.3−1.2Hypothetical protein
    SMU.109−1.02.2−1.0Permease (efflux protein)
    SMU.166−1.13.7−1.2Hypothetical protein
    SMU.167−1.12.6−1.2Hypothetical protein
    SMU.1681.03.5−1.5Putative transcriptional regulator
    SMU.3251.33−1.3Deoxyuridine 5′-triphosphate nucleotidohydrolase
    SMU.3261.13.3−1.3Hypothetical protein
    SMU.3271.33.1−1.2DNA repair protein RadA
    SMU.3521.261.0Ribulose-phosphate 3-epimerase
    SMU.3531.15.61.1Hypothetical protein
    SMU.3541.15.41.5Hypothetical protein, Ccs50
    SMU.3551.25.91.2Putative CMP-binding factor, CBF1
    SMU.3561.03.2−1.0 pur operon repressor
    SMU.4981.664.8−1.0Putative late competence protein, ComFA
    SMU.4991.340.5−1.0Putative late competence protein, ComFC
    SMU.500−1.43.21.1Putative ribosome-associated protein, YflA
    SMU.5051.114.41.4Putative adenine-specific DNA methylase
    SMU.5061.05.61.2Putative type II restriction endonuclease
    SMU.507−1.24.9−1.3DeoR family transcriptional regulator
    SMU.508−1.04.9−1.2Hypothetical protein
    SMU.539c1.08.71.2Signal peptidase type IV, CilC
    SMU.6251.8131.7−1.2Putative competence protein, CilE, DelA, ComEA
    SMU.6261.561.71.1Putative competence protein, CelB, ComEC
    SMU.627−1.13.31.0Hypothetical protein
    SMU.6441.339.71.0Putative competence protein, CoiA
    SMU.6451.19.8−1.2Putative oligopeptidase
    SMU.6461.210.3−1.2Putative phosphatase
    SMU.7691.218.2−1.3Hypothetical protein
    SMU.7721.14.9−1.2Putative glucan-binding protein D, BglB-like protein
    SMU.8361.574.8−1.2Hypothetical protein, CHAP domain
    SMU.8371.332−1.2Putative reductase
    SMU.8381.32.4−1.1Glutathione reductase
    SMU.926e1.93.72.2GTP pyrophosphokinase, PsrR, RelP
    SMU.927e1.73.41.6Putative response regulator
    SMU.928e1.52.71.7Putative histidine kinase
    SMU.10011.645−1.1Putative DNA-processing Smf protein, DprA
    SMU.10021.26.51.2DNA topoisomerase I
    SMU.10031.25.81.1tRNA (uracil-5-)-methyltransferase, Gid
    SMU.10551.023−1.0DNA repair protein, RadC
    SMU.1400c−1.02.7−1.1Hypothetical protein
    SMU.19161.46.31.7Histidine kinase of competence regulon, ComD
    SMU.19171.5101.9ComE, response regulator of sakacin A production
    SMU.1965c1.12.41.0Putative histidine kinase
    SMU.1966c−1.13.7−1.2Putative periplasmic sugar-binding protein
    SMU.19671.452.8−1.1Single-stranded-DNA-binding protein, SsbB
    SMU.19781.37.51.1Putative acetate kinase
    SMU.1979c1.229.8−1.3Hypothetical protein
    SMU.1980c1.4102.3−1.2Hypothetical protein, ComGG, CglG
    SMU.1981c1.268.61.0Hypothetical protein, ComGE, CglE
    SMU.1982c1.1111.6−1.1Hypothetical protein
    SMU.19831.068.8−1.0Putative competence protein ComGD, CglD
    SMU.19841.570−1.3Putative competence protein ComGC
    SMU.19851.469.81.1ABC transporter ComGB
    SMU.19871.6106−1.1Putative ABC transporter, ATP-binding protein ComGA
    SMU.19971.025.7−1.3ComX, SigX
    SMU.2076c1.04.2−1.3Hypothetical protein
    SMU.20851.54.61.3Recombinase A, RecA
    SMU.20861.281.0Competence damage-inducible protein A, CinA
  • a Genes upregulated in response to CSP under at least one of the conditions tested (mean change, >2-fold).

  • b S. mutans gene locus tag as in GenBank (S. mutans UA159, accession no. AE014133 ), except for comS, which is not annotated in the S. mutans genome.

  • c Mean fold change in gene expression in two independent biological experiments comparing CSP-treated and untreated parallel cultures.

  • d Annotation as in GenBank (accession no. AE014133 ) plus common gene names used in the literature.

  • e TAR initiated by early gene SMU.925.