Table 2 Summary of gene-family phylogenies
| Gene family | D. pulexgenes | Protein model name(s) |
Scaffold # Location | previous trees | expansion in pancrustaceans? |
|---|---|---|---|---|---|
| visual system specification gene families | |||||
| Decapentaplegic (Dpp) | 1 | Dappu-347232 | 2:2889112-2890686 | [93, 94] | No |
| Engrailed (En) | 2 | Dappu-290630 | 106:41493-47422 | -- | Yes |
| Dappu-290638 | 106:25280-34404 | ||||
| Hedgehog (Hh) | 2 | Dappu-347555 | 207:81902-105568 | [95] | No |
| Wnt1 | 1 | Dappu-44743 | 8:1160125-1175065 | [96, 97] | No |
| Zerknullt (Zen) | 0 | [98] | Yes, fly | ||
| retinal determination network gene families | |||||
| Dachshund (Dac) | 1 | Dappu- 310049 | 1:4072756-4116888 | [99] | Yes, insects |
| Eyes-absent (Eya) | 1 | Dappu- 204955 | 1:62314-73955 | [100] | No |
| Eyegone (Eyg/Toe) | 1 | Dappu- 253988 | 74:25897-37400 | -- | Yes |
| Pax-6 | 2 | Dappu- 249978 | 51:368439-379409 | [101, 102] | Yes |
| Dappu-249991 | 51:427984-441429 | ||||
| Six 1/2 | 1 | Dappu-65962 | 275:49584-50586 | [102] | No |
| photoreceptor differentiation gene families | |||||
| Epidermal Growth Factor | 1 | Dappu-324147 | 60:112587-119018 | [103] | Yes |
| Receptor (EGFR) | Dappu- 321139 | 39:412588-415432 | |||
| Kruppel (Kr) | 1 | Dappu-290527 | 2:2312128-2315494 | -- | No |
| Glass (Gl) | 1 | Dappu-234903 | 4:2598047-2600296 | [39] | No |
| Munster (Mu)** | 0 | -- | ? | ||
| Notch | 1 | Dappu-328760 | 108:325324-337022 | [90, 104] | No |
| Spam*** | 0 | --- | -- | ||
| Spitz (Spi) | 1 | Dappu-271304 | 1714:5914-7575 | [103] | Yes |
| CVC Homeobox (Vsx) | 1 | Dappu-323346 | 53:603419-625383 | [105] | Yes, silkworm+fly |
| phototransduction gene families | |||||
| Arrestin (Arr) | 2 | Dappu-216585 | 86:316599-318172 | [106] | Yes, beetle |
| Dappu-207575 | 5:2476074-2477692 | ||||
| Gq-alpha | 2 | Dappu-211929 | 25:514047-515490 | [107] | No |
| Dappu-188187 | 25:531825-536252 | ||||
| R-opsin | 30 | see Colbourne J et al: Genome Biology of the Model Crustacean Daphnia pulex, submitted | [29] | Yes | |
| Phospholipase-C (PLC) | 2 | Dappu- 226357 | 53:369165-377304 | [108] | Yes, fly, bee |
| Dappu- 304714 | 3:1803843-1812297 | ||||
| Transient Receptor | 2 | Dappu-54362 | 41:27419-33467 | -- | Yes |
| Potential Channel (TRPC) | Dappu- 309057 | 9:569391-574613 | |||
| Dappu- 309057 | 56:282882-311121 | ||||