Table 1.
Mismatches detected in bisulfite-treated genomic DNA
| Detected mismatches (%) | |||||||
|---|---|---|---|---|---|---|---|
| Sample | C → T | C → A/G | G → A | G → C/T | A → N* | T → N | Number of sequenced bases |
| Bisulfite-treated ssDNA control | |||||||
| Expt 1 | 94.80 | 0.06 | 0.13 | 0.06 | 0.17 | 0.07 | 174 549 412 |
| Expt 2 | 94.80 | 0.06 | 0.13 | 0.07 | 0.17 | 0.06 | 167 138 560 |
| gDNA without bisulfite treatment | |||||||
| Mid-log | 0.04 | 0.06 | 0.04 | 0.06 | 0.11 | 0.11 | 3 415 108 394 |
| Bisulfite-treated gDNA | |||||||
| Mid-log | |||||||
| Expt 1 | 6.29 | 0.07 | 6.28 | 0.07 | 0.11 | 0.11 | 9 028 568 963 |
| Expt 2 | 6.37 | 0.07 | 6.37 | 0.07 | 0.12 | 0.12 | 563 946 106 |
| MB Nuclease | 4.98** | 0.15 | 5.06** | 0.15 | 0.26 | 0.26 | 334 177 870 |
| UV-irradiated | |||||||
| Expt 1 | 8.78 | 0.07 | 8.77 | 0.07 | 0.11 | 0.11 | 2 486 784 904 |
| Expt 2 | 10.86 | 0.07 | 10.82 | 0.07 | 0.12 | 0.12 | 536 444 294 |
| MB Nuclease | 5.96** | 0.12 | 6.04** | 0.12 | 0.21 | 0.21 | 296 677 061 |
| Stationary | |||||||
| Expt 1 | 11.26 | 0.06 | 11.23 | 0.06 | 0.11 | 0.11 | 1 866 168 393 |
| Expt 2 | 15.65 | 0.07 | 15.67 | 0.07 | 0.13 | 0.13 | 575 894 587 |
| MB Nuclease | 5.90** | 0.14 | 6.02** | 0.14 | 0.24 | 0.24 | 359 640 871 |
* A → N and T → N denote all three mismatches at A and T bases.
** Significant decrease (P < 0.0001, Chi-square test) in the levels of C → T and G → A mutations, compared to samples not treated with Mung Bean Nuclease (MB Nuclease).