Table 1.
Differentially methylated cytosines (Cdiffmet) between samples SC5314, SC5314-GTH12, L757, and L757-GTH12.
| mtDNA localization |
|||||
|---|---|---|---|---|---|
| Samples | Methylation | Context | Total | Non-coding regions | Genes (number Cdiffmet) |
| SC5314 versus L757 | Hypo | CpG | 530 | 332 | RRNL (35), tRNA-Ala (5), COX2 (2), NAD6 (1), NAD1 (3), CM_00230W (20)∗, CM_00220W (13)∗, CM_00240W (35)∗, CM_00250W (51)∗, COX1 (66), NAD2 (7), NAD3 (2), CM_00340W (11)∗∗, COB (29), RRNS (7), NAD4L (4), NAD5 (6), NAD4 (14), tRNA-Met (2), ATP6 (6), ATP8 (2), tRNA-Pro (3), tRNA-Gly (5) |
| Hypo | CHH | 4,355 | 2,860 | RRNL (149), tRNA-Ala (7), COX2 (36), NAD6 (28), NAD1 (28), COX1 (505), CM_00220W (121)∗, CM_00230W (205)∗, CM_00240W (325)∗, CM_00250W (437)∗, NAD2 (120), NAD3 (32), COB (216), CM_00340W (131)∗, RRNS (39), NAD4L (21), NAD5 (79), NAD4 (124), tRNA-Met (6), ATP6 (66), ATP8 (13), tRNA-Pro (8), tRNA-Cys (9), tRNA-Gly (9) | |
| Hypo | CHG | 635 | 379 | RRNL (47), tRNA-Ala (1), COX2 (6), NAD6 (4), NAD1 (8), COX1 (66), CM_0022OW (11)∗, CM_00230W (22)∗, CM_00240W (39)∗, CM_00250W (52)∗, NAD2 (20), NAD3 (4), COB (37), CM_00340W (20)∗∗, RRNS (6), NAD4L (5), NAD5 (14), NAD4 (28), ATP6 (3), ATP8 (3), tRNA-Pro (2), tRNA-Gly (2) | |
| SC5314 versus L757 | Hypo | CHH | 3 | 0 | RRNL (1), CM_00230W (2)∗, CM_00220W (2)∗, CM_00240W (2)∗, CM_00250W (2)∗, COX1 (2) |
| SC5314-GTH12 versus L757-GTH12 | Hyper | CpG | 20 | 11 | ATP6 (1), CM_00240W (7)∗, CM_00250W (7)∗, COX1 (7), NAD2 (1) |
| Hypo | CpG | 17 | 10 | ATP6 (2), COX2 (1), COX1 (1), COB (3) | |
| Hyper | CHH | 95 | 70 | ATP6 (2), CM_00240W (20)∗, CM_00250W (20)∗, COX1 (20), NAD2 (2), NAD4 (1) | |
| Hypo | CHH | 92 | 71 | ATP6 (2), RRNL (1), COX2 (2), CM_00220W (2)∗, CM_00240W (2)∗, CM_00230W (2)∗, CM_00250W (3)∗, COX1 (5), NAD2 (2), CM_00340W (6)∗∗, COB (8), NAD4 (1) | |
| Hyper | CHG | 13 | 8 | CM_00250W (4)∗, CM_00240W (4)∗, COX1 (4), NAD2 (1) | |
| Hypo | CHG | 6 | 4 | COB (2), CM_00340W (1)∗∗ | |
Bases with q-value < 0.01 and difference of methylation greater than 30% for cytosines with a minimum coverage ≥ 10 on both samples. All Cdiff met were hypomethylated on sample GTH12 as compared to their corresponding (SC5314 or L757). Endonucleases coded within COX1 (∗) or COB (∗∗) gene sequences.