Table 1. List of plastid-encoded genes annotated for Hydrodictyon reticulatum and Pediastrum duplex.
Open reading frames (orfs) ≥300 bp are indicated separately for each plastome.
| Gene class | Genes | |||
|---|---|---|---|---|
| Ribosomal RNAs | rrf x2IR | rrl x2IR * in Pd | rrs x2IR | |
| Transfer RNAs | trnA-UGC x2IR | trnC-GCA | trnD-GUC | trnE-UUC x2 |
| trnF-GAA | trnG-UCC | trnH-GUG | trnI-CAU | |
| trnI-GAU x2IR | trnK-UUU | trnL-UAA * | trnL-UAG | |
| trnMe-CAU | trnMf-CAU | trnN-GUU | trnP-UGG | |
| trnQ-UUG | trnR-ACG | trnR-UCU | trnS-GCU x2IR | |
| trnS-UGA | trnT-UGU | trnV-UAC | trnW-CCA | |
| trnY-GUA | ||||
| ATP synthase | atpA | atpB * in Pd | atpE | atpF |
| atpH x2 | atpI | |||
| Chlorophyll biosynthesis | chlB | chlL | chlN | |
| Cytochrome | petA | petB | petD | petG |
| petL | ||||
| Photosystem I | psaA ts | psaB * in Pd | psaC | psaJ |
| Photosystem II | psbA * in Hr | psbB * in Hr | psbC | psbD |
| psbE | psbF | psbH | psbI | |
| psbJ | psbK | psbL | psbM | |
| psbN | psbT | psbZ | ||
| Ribosomal proteins | rpl2 | rpl5 | rpl14 | rpl16 |
| rpl20 | rpl23 | rpl32 | rpl36 | |
| rps2 | rps3 | rps4 | rps7 | |
| rps8 | rps9 | rps11 | rps12 | |
| rps14 | rps18 | rps19 | ||
| RNA polymerase | rpoA | rpoBa | rpoBb | rpoC1 |
| rpoC2 | ||||
| Hypothetical proteins | ftsH | ycf1 | ycf3 | ycf4 |
| ycf12 | ||||
| Miscellaneous proteins | ccsA | cemA | clpP | infA |
| rbcL | tufA | |||
| orfs (H. reticulatum) | orf102a | orf102b | orf104 | orf106 |
| orf106 | orf110 | orf112 | orf116 | |
| orf117 | orf119a | orf119b | orf120a | |
| orf120b | orf121 | orf122 | orf123 | |
| orf126 | orf127 | orf128 | orf133 | |
| orf139a | orf139b x2IR | orf140 | orf149a | |
| orf149b | orf150 x2IR | orf151a | orf151b | |
| orf153 | orf154 | orf161 | orf162 | |
| orf163 | orf166 | orf168 | orf170 | |
| orf174 | orf176 | orf182 | orf187 | |
| orf192 | orf194 | orf197 | orf200 | |
| orf202 | orf208 | orf219 | orf228 | |
| orf200 | orf234 x2IR | orf244 | orf311 x2IR | |
| orf327 x2IR | orf374 | orf383 x2IR | orf483 | |
| orf598 | orf602 | orf1491✜ | ||
| orfs (P. duplex) | orf99 | orf103 | orf106 | orf107a |
| orf107b x2IR | orf113a | orf113b | orf118 | |
| orf119 | orf120 | orf121 x2IR | orf124 | |
| orf127 | orf129 x2IR | orf132 | orf143 | |
| orf145 | orf151 | orf153 x2IR | orf164 | |
| orf171 x2IR | orf184 x2IR | orf186 x2IR | orf201 x2IR | |
| orf270 | orf275 x2IR | orf300 | orf327 | |
| orf432 | orf747 | orf854 | orf1819✜ | |
Notes.
- ts
- trans-spliced
- *
- intron-containing gene in both plastomes
- * in Hr
- intron(s) in H. reticulatum but not P. duplex
- * in Pd
- intron(s) in P. duplex but not H. reticulatum
- X2
- duplicated gene not in inverted repeat (IR)
- x2IR
- duplicated gene in IR
- ✜
- shares 58.6% similarity between H. reticulatum and P. duplex (see Table 4)