Table 1.
Experimentally-determined essential gene sets used in the present study.
| Phylum | Species | Total of essential Genes | Number of CDSs | % of essential genes | Medium | Approach | Ref |
|---|---|---|---|---|---|---|---|
| Actinobacteria | Mycobacterium tuberculosis H37Rv | 774 | 4018 | 19.20% | Minimal | High-density transposon mutagenesis + Illumina sequencing | [85] |
| Bacteroides | Bacteroides fragilis 638R | 550 | 4290 | 12.80% | Rich | Transposon delivery vetor + Illumina sequencing | [86] |
| Bacteroides | Porphyromonas gingivalis ATCC 33277 | 463 | 2090 | 22.10% | Rich | Global transposon mutagenesis + Illumina sequencing (TnSeq) | [87] |
| Firmicutes | Bacillus subtilis 168 | 271 | 4176 | 6.40% | Rich | Gene-by-gene inactivation | [77] |
| Firmicutes | Streptococcus sanguinis SK36 | 218 | 2270 | 9.60% | Rich | Systematic gene replacement | [10] |
| Methanococci | Methanococcus maripaludis S2 | 526 | 1722 | 30.50% | Rich | Saturation mutagenesis technique + Illumina sequencing (TnSeq) | [28] |
| Methanococci | Methanococcus maripaludis S2 | 664 | 1722 | 38.50% | Minimal | Saturation mutagenesis technique + Illumina sequencing (TnSeq) | [28] |
| Proteobacteria (alpha) | Caulobacter crescentus NA1000 | 480 | 3877 | 12.40% | Rich | Hyper-saturated transposon mutagenesis + Illumina sequencing | [88] |
| Proteobacteria (beta) | Burkholderia pseudomallei K96243 | 505 | 5727 | 8.80% | Rich | Transposon directed insertion sequencing site (TRADIS) | [9] |
| Proteobacteria (beta) | Burkholderia thailandensis E264 | 406 | 5632 | 7.20% | Rich | Saturation level transposon mutagenesis + Illumina sequencing (TnSeq) | [89] |
| Proteobacteria (gamma) | Acinetobacter baylyi ADP1 | 499 | 3307 | 15.10% | Minimal | Single-gene-deletion | [90] |
| Proteobacteria (gamma) | Escherichia coli K12 | 303 | 4145 | 7.30% | Rich | In-frame single gene deletions | [91] |
| Proteobacteria (gamma) | Francisella tularensis novicida U112 | 396 | 1719 | 23.00% | Rich | Sequence-defined transposon mutant library + Sanger sequencing | [92] |
| Proteobacteria (gamma) | Salmonella enterica typhi Ty2 | 356 | 4370 | 8.10% | Rich | Transposon directed insertion sequencing site (TRADIS) | [76] |
| Proteobacteria (gamma) | Salmonella enterica typhimurium SL1344 | 353 | 4446 | 7.90% | Rich | Transposon directed insertion sequencing site (TRADIS) | [76] |
| Tenericutes | Mycoplasma genitalium G37 | 382 | 475 | 80.40% | Rich | Global transposon mutagenesis + Sanger sequencing | [93] |
| Tenericutes | Mycoplasma pulmonis CT | 310 | 782 | 39.60% | Rich | Global transposon mutagenesis + Sanger sequencing | [94] |