Table 1. Comparison of mutation bias in B. cenocepacia with the mutation bias of seven other species with large mutation datasets and intact mismatch repair (two prokaryotes, five eukaryotes).
| Organism (%GC) | Transitions | Transversions | AT bias | Reference | ||||
|---|---|---|---|---|---|---|---|---|
| A:T > G:C | G:C > A:T | A:T > T:A | G:C > T:A | A:T > C:G | G:C > C:G | |||
| B. cenocepacia (0.67) | 6.88 | 7.51 | 2.67 | 2.44 | 5.35 | 2.38 | 0.81 | This study |
| E. coli (0.51)a | 8.74 | 13.71 | 2.80 | 5.08 | 6.64 | 2.88 | 1.22 | Lee et al. (2012) |
| M. florum (0.27)a | 50.93 | 640.83 | 15.67 | 360.14 | 11.75 | 185.36 | 15.97 | Sung et al. (2012a) |
| H. sapiens (0.45) | 429.00 | 961.00 | 129.00 | 258.00 | 152.00 | 295.00 | 2.10 | Lynch (2010) |
| D. melanogaster (0.42)a | 101.13 | 513.19 | 98.06 | 130.76 | 48.01 | 74.52 | 4.32 | Schrider et al. (2013) |
| S. cerevisiae (0.38)a | 7.13 | 17.86 | 3.03 | 9.69 | 5.30 | 7.82 | 2.22 | Zhu et al. (2014) |
| A. thaliana (0.36)a | 104.54 | 896.30 | 43.56 | 139.08 | 60.98 | 123.63 | 6.26 | Ossowski et al. (2010) |
| C. elegans (0.35)a | 16.47 | 57.23 | 17.50 | 44.09 | 7.72 | 16.89 | 4.19 | Denver et al. (2012) |
The strength of the AT-mutation bias, calculated as the ratio of the conditional mutation rates in the G:C > A:T direction to the conditional mutation rates in the A:T > G:C direction, is substantially higher in all other species than in B. cenocepacia.
a
Conditional mutation rates (×1011) are calculated as the number of each mutation type, divided by the product of the number of generations and the total A:T or G:C sites in each respective reference genome if the raw data are not directly available in the cited reference (Wei et al. 2014).