Table 1.
Status of combinations (a) – (d), PAS, SGD and PolC in Firmicutes taken in this study
| Organisms | % of 10 kb segments along LeS with combinations@ | PAS | SGD | PolC (Y/N) | ||||
|---|---|---|---|---|---|---|---|---|
| (a) | (b) | (c) | (d) | |||||
| G > C | G > C | G ≤ C | G ≤ C | LeS | p^ | |||
| A > T | A ≤ T | A > T | A ≤ T | |||||
| Trend I | ||||||||
| A. woodii | 90.1 | 8.4 | 0.5 | 1 | Y | 0.78 | *** | Y |
| A. fermentans | 89.2 | 7.3 | 3 | 0.4 | Y | 0.84 | *** | Y |
| A. arabaticum | 87.8 | 11.8 | 0 | 0.4 | Y | 0.9 | *** | Y |
| A. urinae | 69.7 | 29.3 | 1 | 0 | Y | 0.79 | *** | Y |
| A. metalliredigens | 96.5 | 2.2 | 0.8 | 0.4 | Y | 0.86 | *** | Y |
| A. prevotii | 88.8 | 9.6 | 0.5 | 1.1 | Y | 0.84 | *** | Y |
| A. flavithermus | 73.9 | 23.6 | 1.4 | 1.1 | Y | 0.73 | *** | Y |
| B. amyloliquefaciens | 82.9 | 15.1 | 0.5 | 1.5 | Y | 0.74 | *** | Y |
| B. anthracis | 87.2 | 12.3 | 0 | 0.6 | Y | 0.75 | *** | Y |
| B. atrophaeus | 78.8 | 16.6 | 0.7 | 3.9 | Y | 0.74 | *** | Y |
| B. cellulosilyticus | 86.7 | 9.9 | 1.5 | 1.9 | Y | 0.77 | *** | Y |
| B. cereus | 86.9 | 11.9 | 0 | 1.2 | Y | 0.73 | *** | Y |
| B. clausii | 72.6 | 26.5 | 0.5 | 0.5 | Y | 0.76 | *** | Y |
| B. cytotoxicus | 87.5 | 12 | 0 | 0.5 | Y | 0.75 | *** | Y |
| B. halodurans | 77.4 | 20.5 | 0.7 | 1.4 | Y | 0.77 | *** | Y |
| B. licheniformis | 79.9 | 18.3 | 0.9 | 1 | Y | 0.74 | *** | Y |
| B. megaterium | 89.6 | 9 | 1.4 | 0 | Y | 0.75 | *** | Y |
| B. pseudofirmus | 84.7 | 13.8 | 1 | 0.5 | Y | 0.77 | *** | Y |
| B. pumilus | 84.3 | 13 | 1.9 | 0.8 | Y | 0.75 | *** | Y |
| B. selenitireducens | 71.3 | 27 | 0.6 | 1.1 | Y | 0.76 | *** | Y |
| B. subtilis | 80.3 | 17.3 | 0.7 | 1.7 | Y | 0.74 | *** | Y |
| B. thuringiensis | 87.9 | 11.9 | 0 | 0.2 | Y | 0.75 | *** | Y |
| B. weihenstephanensis | 86.9 | 12.2 | 0.2 | 0.8 | Y | 0.73 | *** | Y |
| B. brevis | 82.2 | 16.9 | 0.5 | 0.5 | Y | 0.74 | *** | Y |
| B. proteoclasticus | 85.4 | 14.7 | 0 | 0 | Y | 0.86 | *** | Y |
| C. bescii | 88.3 | 5.8 | 0.7 | 5.2 | Y | 0.81 | *** | Y |
| C. hydrothermalis | 87.7 | 8.3 | 0.7 | 3.3 | Y | 0.81 | *** | Y |
| C. hydrogenoformans | 84.6 | 15.4 | 0 | 0 | Y | 0.87 | *** | Y |
| C. saccharolyticus | 87.8 | 7.1 | 1.4 | 3.7 | Y | 0.81 | *** | Y |
| C. sp. | 94.3 | 4.6 | 0.4 | 0.8 | Y | 0.78 | *** | Y |
| C. acetobutylicum | 91.6 | 5.6 | 0.3 | 2.5 | Y | 0.79 | *** | Y |
| C. autoethanogenum | 87.1 | 8.5 | 0.7 | 3.7 | Y | 0.77 | *** | Y |
| C. beijerinckii | 96.8 | 2 | 0 | 1.2 | Y | 0.83 | *** | Y |
| C. botulinum | 95.9 | 2.8 | 0 | 1.3 | Y | 0.82 | *** | Y |
| C. cellulovorans | 92.2 | 6.1 | 0.4 | 1.3 | Y | 0.8 | *** | Y |
| C. difficile | 92 | 4.6 | 0.5 | 2.9 | Y | 0.81 | *** | Y |
| C. lentocellum | 91.8 | 4.2 | 0.7 | 3.3 | Y | 0.84 | *** | Y |
| C. sticklandii | 95.6 | 3 | 0.7 | 0.7 | Y | 0.83 | *** | Y |
| C. novyi | 96.1 | 3.15 | 0 | 0.8 | Y | 0.84 | *** | Y |
| D. reducens | 81.9 | 14.7 | 1.4 | 1.9 | Y | 0.8 | *** | Y |
| E. faecalis | 89.4 | 9.4 | 0.6 | 0.6 | Y | 0.8 | *** | Y |
| E. faecium | 91 | 9.0 | 0 | 0 | Y | 0.71 | *** | Y |
| E. rhusiopathiae | 71.9 | 1.1 | 25.8 | 1.1 | Y | 0.79 | *** | Y |
| E. rectale | 94.8 | 2.0 | 0 | 3.2 | Y | 0.82 | *** | Y |
| E. AT1b | 78.9 | 20.7 | 0 | 0.3 | Y | 0.64 | *** | Y |
| E. sibiricum | 84.5 | 14.5 | 0.3 | 0.7 | Y | 0.7 | *** | Y |
| F. magna | 89.9 | 5.6 | 1.7 | 2.8 | Y | 0.83 | *** | Y |
| H. hydrogeniformans | 91.6 | 6.1 | 0.8 | 1.5 | Y | 0.89 | *** | Y |
| H. halophilus | 78.1 | 19.3 | 0.2 | 2.4 | Y | 0.74 | *** | Y |
| L. acidophilus | 73.9 | 25.6 | 0 | 0.5 | Y | 0.74 | *** | Y |
| L. amylovorus | 74.3 | 25.2 | 0.5 | 0.0 | Y | 0.75 | *** | Y |
| L. gasseri | 79.9 | 19.1 | 0.5 | 0.5 | Y | 0.77 | *** | Y |
| L. garvieae | 81.6 | 15.8 | 0.5 | 2 | Y | 0.78 | *** | Y |
| L. lactis cremoris | 80.1 | 18.7 | 0.4 | 0.8 | Y | 0.8 | *** | Y |
| L. lactis lactis | 85.7 | 11.6 | 1.6 | 1.2 | Y | 0.81 | *** | Y |
| L. mesenteroides | 78.8 | 20.7 | 0.5 | 0 | Y | 0.83 | *** | Y |
| L. innocua | 84.4 | 11 | 3.7 | 1 | Y | 0.8 | *** | Y |
| L. monocytogenes | 83.5 | 11.4 | 4.8 | 0.3 | Y | 0.79 | *** | Y |
| L. seeligeri | 86.4 | 10 | 2.9 | 0.7 | Y | 0.79 | *** | Y |
| L. sphaericus | 80.1 | 17.1 | 0.9 | 2 | Y | 0.74 | *** | Y |
| N. thermophilus | 81 | 15.8 | 0.3 | 2.9 | Y | 0.8 | *** | Y |
| O. iheyensis | 84 | 13.2 | 0.8 | 1.9 | Y | 0.75 | *** | Y |
| O. valericigenes | 52.1 | 23 | 10 | 15 | Y | 0.61 | *** | Y |
| S. ruminantium | 70.5 | 29.5 | 0 | 0 | Y | 0.86 | *** | Y |
| P. Y412MC10 | 76.4 | 22.8 | 0.4 | 0.4 | Y | 0.77 | *** | Y |
| R. hominis | 97.5 | 2.2 | 0 | 0.3 | Y | 0.87 | *** | Y |
| S. silvestris | 86.9 | 9.3 | 1.5 | 2.3 | Y | 0.76 | *** | Y |
| S. aureus | 86.1 | 11.4 | 1.1 | 1.4 | Y | 0.75 | *** | Y |
| S. epidermidis | 83.1 | 14.1 | 1.2 | 1.6 | Y | 0.73 | *** | Y |
| S. haemolyticus | 83.2 | 13.5 | 1.9 | 1.5 | Y | 0.74 | *** | Y |
| S. lugdunensis | 80.8 | 15.1 | 1.9 | 2.3 | Y | 0.74 | *** | Y |
| S. lipocalidus | 74.4 | 21.4 | 1.7 | 2.5 | Y | 0.8 | *** | Y |
| S. wolfei | 76.5 | 16 | 4.1 | 3.4 | Y | 0.78 | *** | Y |
| T. acetatoxydans | 92.4 | 3.3 | 2.9 | 1.5 | Y | 0.84 | *** | Y |
| T. pseudethanolicus | 92.4 | 6.8 | 0 | 0.9 | Y | 0.87 | *** | Y |
| T. tengcongensis | 87.3 | 11.2 | 0.4 | 1.1 | Y | 0.86 | *** | Y |
| Trend II | ||||||||
| A. intestini | 54.3 | 40.5 | 2.8 | 2.4 | N | 0.8 | *** | Y |
| A. acidocaldarius | 39.9 | 58.8 | 1 | 0.3 | N | 0.78 | *** | Y |
| A. degensii | 45.9 | 49.3 | 0 | 4.7 | N | 0.82 | *** | Y |
| C. genomosp | 63.9 | 34.4 | 0 | 1.7 | N | 0.78 | *** | Y |
| C. proteolyticus | 44 | 52.5 | 1.4 | 2.1 | N | 0.69 | *** | Y |
| D. hafniense | 67.3 | 30.6 | 1.3 | 0.8 | N | 0.79 | *** | Y |
| D. acetoxidans | 58.8 | 34.6 | 1.8 | 4.8 | N | 0.75 | *** | N |
| D. ruminis | 58.4 | 34.4 | 2 | 5.3 | N | 0.77 | *** | Y |
| E. harbinense | 35 | 47 | 6 | 12 | N | 0.58 | *** | Y |
| G. kaustophilus | 66.1 | 32.2 | 0.3 | 1.4 | N | 0.79 | *** | Y |
| M. thermoacetica | 62.1 | 30.3 | 3.1 | 4.6 | N | 0.81 | *** | Y |
| P. polymyxa | 67.1 | 30.6 | 0.4 | 1.9 | N | 0.75 | *** | Y |
| L. brevis | 57.2 | 41.9 | 0.9 | 0 | N | 0.74 | *** | Y |
| S. sputigena | 61.2 | 36.1 | 1.2 | 1.6 | N | 0.8 | *** | Y |
| S. agalactiae | 65.2 | 34.8 | 0 | 0 | N | 0.82 | *** | Y |
| S. equi | 39.3 | 58.9 | 0.5 | 1.4 | N | 0.81 | *** | Y |
| S. pneumoniae | 59.8 | 38.7 | 0 | 1.5 | N | 0.8 | *** | Y |
| S. pyogenes | 62.7 | 35.1 | 1.6 | 0.5 | N | 0.79 | *** | Y |
| S. thermophilum | 46.9 | 47.5 | 3.4 | 2.3 | N | 0.73 | *** | Y |
| T. marianensis | 41.8 | 53.2 | 3.6 | 1.4 | N | 0.76 | *** | N |
| T. narugense | 43.4 | 47.6 | 0 | 9 | N | 0.72 | *** | Y |
| V. parvula | 46.7 | 52.9 | 0 | 0.5 | N | 0.88 | *** | Y |
| Trend III | ||||||||
| R. albus | 52.5 | 18.2 | 7.6 | 21.7 | N | 0.6 | *** | Y |
| Trend IV | ||||||||
| B. tusciae | 26.4 | 72 | 0.5 | 1.1 | N | 0.69 | *** | Y |
| O. oeni | 26.6 | 69.5 | 1.1 | 2.8 | N | 0.74 | *** | Y |
| S. acidophilus | 25.7 | 70.6 | 2.9 | 0.9 | N | 0.71 | *** | Y |
@Bolds are significant at p < 0.05, italics are random.
^p value: *** <0.001.