Table 1.
Genome features of survival strains after DSB induction at IKI-L in the WT and NHEJ- contexts.
| Strain | Conformationa | Deletion (kb) | Duplication (kb) | Insertion (kb) | Amplificationb | Predicted genome size (Mb)c | ||
|---|---|---|---|---|---|---|---|---|
| Size of the AUD (kb) | Estimated copy number | Estimated total size (kb) | ||||||
| WT1 | Circular (6 f) | 876 | 767 | 9.7 | — | 8.20 | ||
| WT2 | Circular (6c) | 785 | 864 | — | — | 8.38 | ||
| WT4 | Circular (6d) | 827 | 761 | — | — | 8.23 | ||
| WT6 | Circular (6e) | 1,140 | 498 | — | 14.7 | 590 | 8,7 | ~16.40 |
| WT17 | Linear | 481 | 829 | — | — | 8.65 | ||
| WT18 | Circular (6d) | 940 | 701 | — | — | 8.06 | ||
| ∆kuA1 | Circular (6 g) | 984 | 665 | — | — | 7.98 | ||
| ∆kuA6 | Circular (6a) | 683 | — | — | — | 7.62 | ||
| ∆kuA12 | Circular (6e) | 1,140 | 498 | — | 14.7 | 840 | 12,3 | ~20.00 |
| ∆kuA13 | Linear | 481 | 829 | — | — | 8.65 | ||
| ∆kuA14 | Circular (6c) | 800 | 783 | — | — | 8.28 | ||
| ∆kuA17 | Linear | 481 | 829 | — | — | 8.65 | ||
| ∆ligCD6 | Circular (6b) | 1,297 | — | 18.8 | — | 7.02 | ||
| ∆ligCD7 | Circular (6e) | 1,097 | 522 | — | 32.8 | 325 | 10,7 | ~18.40 |
| ∆ligCD9 | Circular (6e) | 1,140 | 498 | — | 14.7 | 820 | 12,1 | ~20.00 |
| ∆ligCD11 | Linear | 481 | 829 | — | — | 8.65 | ||
| ∆ligCD16 | Circular (6c) | 785 | 864 | — | — | 8.38 | ||
| ∆ligCD19 | Circular (6a) | 2,116 | — | — | — | 6.18 | ||
aThe chromosomal conformation referring to Fig. 6 is indicated into brackets.
bAUD stands for Amplifiable unit of DNA. The copy number of the amplification was estimated considering the average coverage of sequencing reads of the amplified region relative to that of the whole genome.
cThe genome size of the mutants carrying an amplification of DNA cannot be precisely evaluated.