Table 4.
Partition scheme of 54 concatenated chloroplast protein-coding genes used in this study
| Subset | Amino acid data sets | Nucleotide data sets | ||
|---|---|---|---|---|
| Best model | Partition scheme | Best model | Partition scheme | |
| 1 | LG + I + G | rps12, chlL, atpB, atpA | GTR + I + G | atpA, rps19, tufA, atpF, atpI, ycf12, petL |
| 2 | LG + G | atpF, chlN, atpE | GTR + I + G | psaJ, psbZ, psbB, psaB, petD, psbD, psbK, petB, ycf3, psbH, rpl16, atpB, rpl14 |
| 3 | MTZOA+G + F | psbM, petB, psbI, psbE, psbT, psbN, atpH, psbD, psbB, psaA, psaB | GTR + I + G | ycf4, rps12, rpl2, atpE |
| 4 | CPREV+G | rps19, atpI, chlB, rpl16, rpl2, rpl5 | GTR + G | atpH, psbA |
| 5 | CPREV+G | rps14, rpl20, rps9, cemA, ycf4 | GTR + G | psbM, psbI, psaC, psbL, psbF, psbE, cemA, rpl36, rps14 |
| 6 | JTT + G + F | rps18, rps8, rpl23, rps3, clpP | GTR + I + G | psbN, chlB, chlL, rps11, rpl5, chlN |
| 7 | MTZOA+G | psaJ, psbF, psbJ, psbK, psbH, petL, psbZ, petD | GTR + G | clpP, rps7 |
| 8 | LG | petG, ycf3 | GTR + G | psbJ, psbT, petG |
| 9 | PMB + G | rpl36, psbA, psaC | GTR + I + G | psaA |
| 10 | LG | rps11, psbL, rpl14 | GTR + G | rps2, rps8, rps9, rpl20, rpl23, rps18 |
| 11 | LG + G | rps2 | GTR + G | rps3 |
| 12 | FLU+G | rps7 | ||
| 13 | LG4M + G | tufA | ||
| 14 | MTZOA | ycf12 | ||