Table 2.
Primer Locations and Sequences for PCR Amplification
| Primer Target (Direction)* | Location (bp) | Sequence (5′–3′) | Length† (bp) | Amplicon‡ (bp) |
|---|---|---|---|---|
| Region I (F) | 607 | CAC TGA AAA TGT TTA GAC GGG CTC ACA | 27 | 3,649 |
| Region I (R) | 4,256 | GAG GGG GAA TGC TGG AGA TTG TAA TG | 26 | |
| Region II (F) | 4,223 | CCA TAC CCA TTA CAA TCT CCA GCA TTC C | 28 | 3,965 |
| Region II (R) | 8,188 | CTC CAC AGA TTT CAG AGC ATT GAC CG | 26 | |
| Region III (F) | 8,148 | GAC CGG GGG TAT ACT ACG GT | 20 | 5,446 |
| Region III (R) | 13,594 | TGT CAG GGA GGT AGC GAT GA | 20 | |
| Region IV (F) | 13,541 | CAT ACA CAA ACG CCT GAG CCC TAT CT | 26 | 2,454 |
| Region IV (R) | 15,996 | GCT TTG GGT GCT AAT GGT GGA GTT AAA | 27 | |
| Total mtDNA set 1 (F)§ | 2,671 | CAG TGA AAT TGA CCT GCC CGT GAA | 24 | 191 |
| Total mtDNA set 1 (R)§ | 2,862 | TCT TAG CAT GTA CTG CTC GGA GGT | 24 | |
| Total mtDNA set 2 (F)§ | 14,619 | CCC CAC AAA CCC CAY YAC YAA ACC CA | 26 | 222 |
| Total mtDNA set 2 (R)§ | 14,841 | TTT CAT CAT GCG GAG ATG TTG GAT GG | 26 | |
| Beta globin (F)‖ | 48,510 | CGA GTA AGA GAC CAT TGT GGC AG | 23 | 13,500 |
| Beta globin (R)‖ | 62,029 | GCA CTG GCT TAG GAG TTG GAC T | 22 | |
| HPRT (F)‖ | 11,525 | TGC CTG CTG TAT AGC ACT ATG CCT | 24 | 13,472 |
| HPRT (R)‖ | 24,973 | GCT CTA CCC TAT CCT CTA CCG TCC | 24 | |
| Total mtDNA set 1 template (F)¶ | 2,410 | TAC CCT CAC TGT CAA CCC AAC ACA | 24 | 627 |
| Total mtDNA set 1 template (R)¶ | 3,061 | GTG CAG CCG CTA TTA AAG GTT CGT | 24 | |
| RIII-ND template (F)¶ | 12,203 | TAC CCT CAC TGT CAA CCC AAC ACA | 24 | 583 |
| RIII-ND template (R)¶ | 12,810 | GTG CAG CCG CTA TTA AAG GTT CGT | 24 | |
| Region III-ND (F)# | 12,355 | TAA CCA CCC TAA CCC TGA CTT CCC TA | 26 | 191 |
| Region III-ND (R)# | 12,547 | TGT GGC TCA GTG TCA GTT CGA GAT | 24 | |
| Beta globin short (F)** | 62,367 | CTT GGG TTT CTG ATA GGC AC | 20 | 147 |
| Beta globin short (R)** | 62,514 | CTT AGG GTT GCC CAT AAC AG | 20 |
*
Primer target, primer target region on the mitochondrial genome (refer to Fig. 2).
†
Length, length of primer.
‡
Amplicon, length of amplified product.
§
Primer set 1 in the 16S rRNA and set 2 in the Cyt b genes of the mtDNA.
‖
Primer sets used to quantify damage in the nuclear genome.
¶
Primer sets amplifying template fragments for total mtDNA and RIII-ND primer sets.
#
Region III nondeleted (ND) primer set (Fig. 2).
**
Obtained from rtprimerdb.org, ID: 3897.