Table 2 |
|||||
|
Summary of gene-family phylogenies |
|||||
|
Gene family |
D. pulex genes |
Protein model name(s) |
Scaffold # Location |
previous trees |
expansion in pancrustaceans? |
|
|
|||||
|
visual system specification gene families |
|||||
|
Decapentaplegic (Dpp) |
1 |
Dappu-347232 |
2:2889112-2890686 |
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 |
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 |
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 |
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 |
||||
|
|
|||||
|
**No genome-scale tree. ***Only a single member with this domain architecture found. |
|||||
|
Rivera et al. BMC Evolutionary Biology 2010 10:123 doi:10.1186/1471-2148-10-123 |
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