Table 2.
Gene contents in the cp genomes of Rubus species
| No. | Group of Genes | Genes Names | Amount |
|---|---|---|---|
| 1 | Photosystems I | psaA, psaB, psaC, psaI, psaJ | 5 |
| 2 | Photosystems II | psbA, psbB, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, psbZ, ycf3 ** | 16 |
| 3 | Cytochrome b/f complex | petA, petB *, petD *, petG, petL, petN | 6 |
| 4 | ATP synthase | atpA, atpB, atpE, atpF, atpH, atpI | 6 |
| 5 | NADH dehydrogenase | ndhA *, ndhB *(×2), ndhC, ndhD, ndhE, ndhF, ndhG, ndhH, ndhI, ndhJ, ndhK | 12 |
| 6 | Rubisco large subunit | rbcL | 1 |
| 7 | RNA polymerase | rpoA, rpoB, rpoC1 *, rpoC2 | 4 |
| 8 | Ribosomal proteins (SSU) | rps2, rps3, rps4, rps7(×2), rps8, rps11, rps12 (×3), rps14, rps15, rps16 *, rps18, rps19 | 15 |
| 9 | Ribosomal proteins (LSU) | rpl2 *(×2), rpl14, rpl16 *, rpl20, rpl22 *, rpl23(× 2), rpl32, rpl33, rpl36 | 11 |
| 10 | Assembly/stability of photosystem I | ycf4 | 1 |
| 11 | Transfer RNAs | 37 tRNAs (6contain an intron, 7 in the IRs) | 37 |
| 12 | Ribosomal RNAs | rrn4.5(×2), rrn5(×2), rrn16(× 2), rrn23(× 2) | 8 |
| 13 | RNA processing | matK | 1 |
| 14 | Carbon metabolism | cemA | 1 |
| 15 | Cytochrome c synthesis | ccsA | 1 |
| 16 | Proteins of unknown function | ycf1 *, ycf2(×2), ycf15(× 2), ycf68 | 6 |
| 17 | Other genes | accD, clpP **, infA | 3 |
Note: * Gene contains one intron; ** gene contains two introns; (×2) indicates the number of the repeat unit is 2; (×3) indicates the number of the repeat unit is 3. infA were only annotated in Rubus tephrodes, R. coreanus, R. trianthus, R. hirsutus