TABLE 2.
Genes identified by GAF as being involved in pneumococcal transformation
| Gene | Common namea | Functiona | Essential for competenceb | Reference | Ratioc |
|---|---|---|---|---|---|
| Negatively selected | |||||
| spr0025 | radA | DNA repair | No | 53 | 0.36 |
| spr0344 | rr03 | Response regulator | No | 38 | 0.50 |
| spr0459 | ABC transporter, ATP-binding protein | − | 0.49 | ||
| spr0460 | ABC transporter, permease | − | 0.49 | ||
| spr0777 | Putative permease | − | 0.50 | ||
| spr0838 | Tetrapyrrole methylase/cell division protein | − | 0.45 | ||
| spr0857 | comEC (celB) | DNA pore | Yes | 52 | 0.14 |
| spr0881 | coiA | DNA processing | Yes | 40 | 0.17 |
| spr1259 | NOL1/NOP2/sun family, RNA methylase | − | 0.30 | ||
| spr1260 | Inositol monophosphatase | − | 0.55 | ||
| spr1357 | Putative permease | − | 0.36 | ||
| spr1779 | endA | Endonuclease, degradation of donor strand | Yes | 35, 57 | 0.54 |
| spr1858 | comGG (cglG) | Cell wall channel | Yes | 53 | 0.44 |
| spr1859 | comGF (cglF) | Cell wall channel | − | 0.35 | |
| spr1863 | comGB (cglB) | ComGC-GG export | Yes | 52 | 0.16 |
| spr1864 | comGA (cglA) | ComGC-GG export | Yes | 52 | 0.11 |
| spr2011 | Ribosomal subunit interface protein | No | 53 | 0.48 | |
| spr2013 | comFA (cflA) | Putative helicase/DNA translocase | Yes | 40 | 0.51 |
| spr2014 | Hypothetical protein | − | 0.46 | ||
| spr2042 | comD | Sensor for CSP | Yes | 27, 51 | 0.17 |
| spr2046 | parB | Chromosome segregation protein | No | 53 | 0.41 |
| Positively selected | |||||
| spr0160 | hexB | DNA mismatch repair | No | 55 | 3.4 |
| spr1888 | hexA | DNA mismatch recognition | No | 5, 16 | 4.5 |
a
Names and functions of genes were derived from the NCBI (http://www.ncbi.nlm.nih.gov/) and KEGG (http://www.kegg.com/) websites.
b
Competence data were obtained from the cited references. Yes, essential; no, not essential; −, unknown.
c
Ratios of signal intensities of genes derived from microarray data (intensity when challenged/intensity when not challenged).