Table 1. The information of the organisms used in the current study.
| Organism | RefSeq | Groupa | No.egb | IslandPath-DIMOB(%)c | SIGI-HMM(%)c | Integrated method (%)c | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| A. baylyi ADP1 | NC_005966 | Bacteria(−) | 499 | 0.4 | 5.88 | 15.18 | 0.6 | 7.5 | 15.18 | 1 | 6.41 | 15.3 |
| B. subtilis 168 | NC_000964 | Bacteria(+) | 271 | 0 | 0 | 6.97 | 1.11 | 2.61 | 6.6 | 1.11 | 0.89 | 6.98 |
| B. fragilis 638R | NC_016776 | Bacteria(−) | 547 | 3.84 | 11.67 | 12.8 | 8.59 | 17.03 | 12.46 | 10.06 | 13.96 | 12.63 |
| B. thetaiotaomicron VPI-5482 | NC_004663 | Bacteria(−) | 325 | 2.46 | 3.15 | 7.01 | 2.15 | 2.73 | 7.03 | 5.23 | 3.46 | 7.18 |
| B. pseudomallei K96243 | NC_006350 | Bacteria(−) | 505 | 6.34 | 15.46 | 14.82 | 4.16 | 9.86 | 15.2 | 6.93 | 8.37 | 15.77 |
| B. thailandensis E264 | NC_007651 | Bacteria(−) | 406 | 3.2 | 4.98 | 13.03 | 0 | 0 | 12.7 | 3.2 | 4.68 | 13.11 |
| C. crescentus NA1000 | NC_011916 | Bacteria(−) | 480 | 1.25 | 4.55 | 12.63 | 0.83 | 3.64 | 12.61 | 1.88 | 5.56 | 12.65 |
| E. coli MG1655 | NC_000913 | Bacteria(−) | 609 | 5.26 | 15.53 | 14.67 | 5.09 | 10.44 | 15.04 | 9.03 | 14.55 | 14.73 |
| F. novicida U112 | NC_008601 | Bacteria(−) | 392 | 1.02 | 12.5 | 23 | 0.26 | 20 | 22.81 | 1.02 | 8.33 | 23.22 |
| H. influenzae Rd KW20 | NC_000907 | Bacteria(−) | 642 | 1.25 | 44.44 | 39.82 | 0.62 | 17.39 | 40.2 | 2.34 | 32.61 | 40.09 |
| H. pylori 26695 | NC_000915 | Bacteria(−) | 323 | 1.24 | 8.89 | 22.4 | 0 | − | − | 1.24 | 8.89 | 22.4 |
| M. maripaludis S2 | NC_005791 | Archaeon | 519 | 0.58 | 7.69 | 30.66 | 0 | − | − | 0.58 | 7.69 | 30.66 |
| M. tuberculosis H37Rv | NC_000962 | Bacteria(−) | 687 | 1.6 | 8.53 | 17.9 | 0.58 | 40 | 17.53 | 2.18 | 11.36 | 17.81 |
| M. pulmonis UAB CTIP | NC_002771 | Mycoplasmas | 310 | 0.65 | 9.52 | 40.47 | 0 | − | − | 0.65 | 9.52 | 40.47 |
| P. aeruginosa PAO1 | NC_010729 | Bacteria(−) | 463 | 2.16 | 6.9 | 23.3 | 0 | 0 | 22.41 | 2.16 | 6.67 | 23.36 |
| P. gingivalis ATCC 33277 | NC_002516 | Bacteria(−) | 117 | 0 | 0 | 2.12 | 0 | 0 | 2.13 | 0 | 0 | 2.16 |
| P. aeruginosa UCBPP-PA14 | NC_008463 | Bacteria(−) | 335 | 0 | 0 | 5.83 | 0 | 0 | 5.7 | 1.19 | 1.69 | 5.85 |
| S. aureus N315 | NC_004631 | Bacteria(+) | 358 | 0.84 | 0.86 | 8.86 | 0 | − | − | 1.12 | 0.69 | 9.39 |
| S. oneidensis MR-1 | NC_016810 | Bacteria(−) | 353 | 2.83 | 7.3 | 7.96 | 9.63 | 11.6 | 7.68 | 10.48 | 9.54 | 7.79 |
| S. pneumoniae | NC_016856 | Bacteria(+) | 105 | 1.91 | 0.73 | 2.04 | 13.33 | 4.13 | 1.83 | 13.33 | 2.57 | 1.91 |
| S. sanguinis SK36 | NC_003197 | Bacteria(+) | 230 | 1.74 | 1.15 | 5.51 | 6.52 | 5 | 5.18 | 7.83 | 4.04 | 5.29 |
| S. Typhi Ty2 | NC_004347 | Bacteria(−) | 403 | 0 | − | − | 0 | 0 | 10.07 | 0 | 0 | 10.07 |
| S. Typhimurium SL1344 | NC_009511 | Bacteria(−) | 535 | 2.24 | 6.9 | 11.18 | 0.19 | 1.59 | 11.16 | 2.24 | 5.74 | 11.27 |
| S. Typhimurium str. 14028S | NC_002745 | Bacteria(−) | 302 | 0 | 0 | 12.09 | 0 | 0 | 11.84 | 0 | 0 | 12.19 |
| S. typhimurium LT2 | NC_007795 | Bacteria(−) | 351 | 1.14 | 16.67 | 12.65 | 0 | 0 | 12.69 | 1.14 | 16.67 | 12.65 |
| S. wittichii RW1 | NC_003028 | Bacteria(−) | 244 | 0 | 0 | 11.84 | 0 | − | − | 0 | 0 | 11.84 |
| S. aureus NCTC 8325 | NC_009009 | Bacteria(+) | 218 | 0 | 0 | 9.66 | 0 | 0 | 9.91 | 0 | 0 | 9.97 |
| V. cholerae N16961 | NC_002505 | Bacteria(−) | 779 | 2.44 | 18.81 | 31.24 | 2.31 | 17.82 | 31.28 | 3.08 | 19.05 | 31.35 |
aBacteria(+), Gram-positive bacteria; Bacteria(−), Gram-negative bacteria.
bNumber of essential genes of the organism.
cThe dataset classified by IslandPath-DIMOB (or SIGI-HMM, Integrated method) contain three numbers (%): X, Y, Z. X% is the percentage of essential genes which located in the GIs detected by the IslandPath-DIMOB (or SIGI-HMM, Integrated method) among the total essential genes of the organism. Y% is the percentage of essential genes in GIs. Z% is the percentage of essential genes outside GIs. The character ‘–’ in the column of IslandPath-DIMOB or SIGI-HMM means no genomic island is detected by the corresponding method.