Table 2.
Genes Involved in Intragenic Recombination Detected by Various Programs
| Recombinants |
|||||
| Genesa |
Total | RDPb | Phic | OnePopb | |
| Universal | Total | 1,072 | 520(48.51%) | 713(66.51%) | 852(79.48%) |
| Information storage and processing | 206 | 103(50.00%) | 131(63.59%) | 152(73.79%) | |
| Cellular processes and signaling | 194 | 100(51.55%) | 140(72.16%) | 160(82.47%) | |
| Metabolism | 382 | 215(56.28%) | 288(75.39%) | 338(88.48%) | |
| Poorly characterized | 194 | 79(40.72%) | 123(63.40%) | 150(77.32%) | |
| Not in COG | 123 | 35(28.46%) | 56(45.53%) | 78(63.41%) | |
| Virulence | Total | 164 | 82(50.00%) | 95(57.93%) | 117(71.34%) |
| Universally present | 61 | 32(52.46%) | 37(60.66%) | 52(85.25%) | |
Universal genes were grouped according to their Clusters of Orthologous Groups of proteins (COG) functional categories. Information storage and processing includes COG categories J, A, K, L, and B; cellular processes and signaling includes COG categories D, Y, V, T, M, N, Z, W, U, and O; Metabolism includes C, G, E, F, H, I, P, and Q; Poorly characterized includes R and S. Because some genes have been annotated into multiple COG categories, the sum of individual groups is slightly larger than the total number of single-copy genes.
After Bonferroni correction for multiple tests at the 0.05 level.
Significance was determined when P < 0.05 was observed in all three tests (NSS, Max χ2, and Phi) in the Phi package.