Table 1.
Characteristics of 18 cpSSR markers developed for Taxus chinensis var. mairei.
| Locus | Primer sequences (5′–3′) | Repeat motif | Ta (°C) | Product size (bp) | Locationc |
| PTC-cp01a,b | F: CACCATCCACTGCCTTTG | (AT)9 | 54 | 168 | trnH-GUG-trnI-CAU (337–354) |
| R: GTGCGGTCAGAACTTGTCA | |||||
| PTC-cp02b | F: TGCGTGGCTGTGAGATG | (AC)5 | 54 | 213 | trnT-trnE (21,944–21,953) |
| R: GCGGAACCCGTAGTGAA | |||||
| PTC-cp03 | F: AAGCCGCCCTGTTTTA | (TA)5(AT)5 | 54 | 232 | trnC-GCA-rpoB (25,696–25,715) |
| R: ATCTCATCGCATTGGAAGT | |||||
| PTC-cp04b | F: TGTGGCACTATCCAAGGTC | (AT)5 | 54 | 135 | rpoC2 (32,846–32,855) |
| R: GCGTGGCAATACATCTCC | |||||
| PTC-cp05 | F: TGAACAGGTCCGACAGCA | (A)11TACAA(AT)5 | 55 | 376 | atpF-atpA (39,353–39,378) |
| R: CCATCCCATCTCCTACTTGA | |||||
| PTC-cp08 | F: TGATGAGTGCCGCCTAAT | (AT)5AGAAGTATACTTC(TA)5 | 54 | 173 | rpl36-rps11 (57,373–57,405) |
| R: CGGGGAACTAATCTTCTTGT | |||||
| PTC-cp09a | F: TGTATCAACCAATGCTTCC | (TC)6 | 54 | 273 | psbT-psbB (62,807 – 62,818) |
| R: ATTCATAGATGTTTTCGCTG | |||||
| PTC-cp13b | F: AGTCCAAAATCTCCCACAC | (AT)5 | 54 | 180 | ndhF (104,893–104,902) |
| R: CTTCTTCAATGCTTCTATGCT | |||||
| PTC-cp15 | F: GCTTGGACCCATTGTTGAA | (A)10 | 55 | 279 | rpoC1-rpoC2 (32,043–32,052) |
| R: CATACTTTAGGTGGCGTTGTTA | |||||
| PTC-cp16a,b | F: CCCATACTCCCATTTCATAACTT | (A)10 | 55 | 237 | rpoC2 (34,060–34,069) |
| R: AGCACTTGCCCAGGACTAACT | |||||
| PTC-cp18a,b | F: TCCAGGTGCTGATGCTACTAA | (A)10 | 55 | 186 | rpoC2-atpI (35,652–35,661) |
| R: TCGTGCTGCTTCTTTCTTTG | |||||
| PTC-cp21b | F: GGTGGGGTGGGAACG | (A)10 | 55 | 306 | rpl32 (106,169–106,178) |
| R: TTGGGTGAGCCATAGAAAT | |||||
| PTC-cp22a,b | F: AGCAATGTTTGGAAGGGAA | (A)10 | 55 | 130 | rpl32-trnP-GGG (106,257–106,266) |
| R: GGTGTAGTCTATTTGGTGGTGTT | |||||
| PTC-cp23b | F: AACTAATCCCAATGGCTTCA | (T)10 | 55 | 301 | ycf3 intron (9378–9387) |
| R: CCCTATGCGTGCCTATCA | |||||
| PTC-cp26a,b | F: TGGATAGGACCCATAACAGG | (T)10 | 55 | 326 | ycf4 (65,483–65,492) |
| R: AAACTACGGCGATTTCTTC | |||||
| PTC-cp28 | F: TGTAGTTTGCCGAGTGGTT | (T)11 | 55 | 336 | psbE-petL (70,723–70,733) |
| R: AATAATAGTAGACATTGGAAGGAC | |||||
| PTC-cp29a,b | F: AATAGGTTCTGGAGCGGTTA | (T)11 | 55 | 254 | rps8 (75,439–75,449) |
| R: AGATTTAGTTCGTCACGGGTA | |||||
| PTC-cp32a,b | F: CCTCGTGCGGATAACTAAA | (TCTTCC)7 | 55 | 284 | rps15-chlN (121,797–121,838) |
| R: TGGCAAAGATTCCCTGG |
Note: Ta = annealing temperature.
a
Monomorphic loci for Pseudotaxus chienii.
b
Monomorphic loci for T. chinensis var. mairei.
c
Locus location (genic or intergenic region); the position amplified by the primers in the T. chinensis var. mairei chloroplast genome is given in parentheses.