TABLE 2.
T. pallidum genes that are weakly expressed during infection
| T. pallidum ORF no.a | cDNA/DNA signal ratio | Coding strand | Putative gene function | cDNA/DNA signal ratio normalized to that of TP0426
|
|
|---|---|---|---|---|---|
| DNA microarray | Real-time PCR | ||||
| TP0585 | 0.36 | + | Oligopeptide ABC transporter, periplasmic binding protein (oppA) | ||
| TP0717 | 0.36 | − | Flagellar biosynthetic protein (fliQ) | ||
| TP0627 | 0.36 | + | Exonuclease (sbcC) | ||
| TP0999 | 0.36 | + | Putative cell division protein | ||
| TP0045 | 0.36 | − | Putative adenosine deaminase | ||
| TP0140 | 0.35 | − | K+ transport protein (ntpJ) | ||
| TP0141 | 0.35 | + | Methylated-DNA-protein-cysteine S-methyltransferase (dat) | ||
| TP0647 | 0.35 | − | Seryl-tRNA synthetase (serS) | ||
| TP0626 | 0.34 | + | Putative exonuclease | ||
| TP0016 | 0.34 | + | ATP-dependent protease LA (lon-1) | ||
| TP0446 | 0.34 | + | GcpE protein (gcpE) | ||
| TP0812 | 0.34 | + | Long-chain-fatty-acid-CoA ligase, authentic frame shift | ||
| TP0694 | 0.33 | + | Putative 5,10-methenyltetrahydrofolate synthetase | ||
| TP0393 | 0.33 | + | Smf protein (smf) | ||
| TP0805 | 0.33 | − | Exoribonuclease II (rnb) | ||
| TP0078 | 0.33 | + | Spore coat polysaccharide biosynthesis protein (spsC) | ||
| TP0003 | 0.33 | + | RecF protein (recF) | ||
| TP0902 | 0.32 | − | Carboxylesterase (est) | 0.25 | 0.16 |
| TP0035 | 0.32 | + | ABC transporter, ATP-binding protein | ||
| TP0142 | 0.32 | − | Putative thiamine ABC transporter, ATP-binding protein | ||
| TP0270 | 0.32 | + | Polynucleotide adenylyltransferase (pcnA) | ||
| TP0009 | 0.31 | − | Tpr protein A, authentic frame shift (tprA) | 0.24 | 0.13 |
| TP0077 | 0.31 | + | Capsular polysaccharide biosynthesis protein (cap5D) | ||
| TP0218 | 0.31 | + | Putative sigma factor SigB regulation protein | ||
| TP0146 | 0.31 | + | Chromate resistance protein A, authentic frame shift | ||
| TP1005 | 0.31 | − | DNA polymerase III, subunits gamma and tau (dnaH) | ||
| TP0500 | 0.30 | + | Penicillin-binding protein (pbp-1) | ||
| TP0027 | 0.30 | + | Putative hemolysin | ||
| TP0578 | 0.29 | + | Signal recognition particle-docking protein FtsY (ftsY) | ||
| TP0687 | 0.29 | − | DNA recombinase (recG) | 0.23 | 0.28 |
| TP0501 | 0.29 | + | Rod shape-determining protein (rodA) | 0.22 | 0.10 |
| TP0080 | 0.29 | + | Quinoline 2-oxidoreductase | ||
| TP0581 | 0.29 | + | ABC transporter, ATP-binding protein | ||
| TP0105 | 0.28 | + | DNA polymerase I (polA) | ||
| TP0344 | 0.27 | − | Transcription repair coupling factor (trcF) | ||
| TP0387 | 0.27 | + | Cell division protein (ftsW) | 0.21 | 0.16 |
| TP0881 | 0.27 | − | ABC transporter, ATP-binding protein (natA) | ||
| TP0448 | 0.27 | + | Putative uracil phosphoribosyltransferase | ||
| TP0521 | 0.27 | − | Putative DNA polymerase III, gamma and tau subunits | ||
| TP0450 | 0.27 | + | Translation elongation factor G (fusA-1) | ||
| TP0716 | 0.27 | − | Flagellar biosynthetic protein (fliR) | ||
| TP0670 | 0.26 | − | d-Alanine-d-alanine ligase (ddlA) | ||
| TP0933 | 0.26 | − | UDP-N-acetylmuramoylalanyl-d-glutamate-2,6-diaminopimelate ligase (murE) | 0.20 | 0.26 |
| TP0106 | 0.26 | − | Putative carnitine transporter | ||
| TP0804 | 0.26 | + | Sugar ABC transporter, ATP-binding protein (ugpC) | ||
| TP0340 | 0.26 | − | Folylpolyglutamate synthetase (folC) | ||
| TP0288 | 0.25 | + | Spore coat polysaccharide biosynthesis protein (spsF) | ||
| TP0337 | 0.24 | + | Dimethyladenosine transferase (ksgA) | ||
| TP0028 | 0.23 | + | Putative hemolysin | 0.18 | 0.09 |
| TP0514 | 0.23 | + | Excinuclease ABC, subunit A (uvrA) | ||
| TP0689 | 0.22 | − | GTP-binding protein | ||
| TP0147 | 0.21 | − | Putative alpha-amylase 1 | ||
| TP0336 | 0.20 | + | Putative ComE protein | ||
| TP0671 | 0.20 | − | Putative sn-1,2-diacylglycerol cholinephosphotransferase | ||
| TP0566 | 0.20 | − | Alginate O-acetylation protein (algI) | ||
| TP0516 | 0.19 | − | Virulence factor (mviN) | 0.15 | 0.15 |
| TP0688 | 0.18 | − | Immunity protein (mccF) | ||
| TP0715 | 0.17 | − | Flagellar biosynthetic protein (flhB) | ||
| TP0714 | 0.17 | − | Flagellar biosynthesis protein (flhA) | ||
| TP0520 | 0.16 | − | Sensory transduction histidine kinase, authentic frame shift | ||
| TP0519 | 0.15 | − | Response regulatory protein (atoC) | 0.11 | 0.07 |
| TP0517 | 0.13 | − | Holliday junction nuclease (ruvC) | ||
a
Thirty-eight ORFs coding for hypothetical proteins (including conserved hypothetical proteins) were omitted from this table. For a complete listing, see Tables S1 and S2 in the supplemental material.