Table 1. Protein Sequences used in Phylogenetic Analysis for C. punctatum Sox8 and Sox9 clones.
Protein sequences used for phylogenetic analysis of Sox8, Sox9 and Sox10 HMG domains were compared to the three C. punctatum Sox8 and Sox9 clones. The outgroup used were from the Sox4 subfamily.
| Organism of Interest | Common Name | Clone ID # | HMG Domain |
|---|---|---|---|
| Chiloscyllium punctatum | Bamboo Shark | A2.7 | Sox 8a |
| Chiloscyllium punctatum | Bamboo Shark | A2.16 | Sox 8b |
| Chiloscyllium punctatum | Bamboo Shark | A2.5 | Sox 9 |
| Species Name | Common Name | Protein Accession # | HMG Domain |
|---|---|---|---|
| Scyliorhinus canicula | Small-spotted catshark | ABA10785 | Sox 8 |
| Trachemys scripta | Red-eared slider turtle | AAP59791 | Sox 8 |
| Dicentrarchus labrax | European seabass | CBN81184 | Sox 8 |
| Sparus aurata | Gilt-headed sea bream | AEV53629 | Sox 8 |
| Tetraodon nigroviridis | Green spotted pufferfish | AAT42231 | Sox 8 |
| Oryzias latipes | Japanese medaka | NP_001158342 | Sox 8 |
| Epinephelus coioides | Orange spotted grouper | AFF57873 | Sox 8 |
| Misgurnus anguillicaudatus | Oriental weatherfish | ACZ65966 | Sox 8 |
| Anolis carolinensis | Green anole lizard | XP_003224806 | Sox 8 |
| Salmo salar | Salmon | NP_001117071 | Sox 8 |
| Gallus gallus | Chicken | NP_990062 | Sox 8 |
| Mus musculus | Mouse | NP_035577 | Sox 8 |
| Xenopus laevis | African clawed frog | NP_001083964 | Sox 8 |
| Danio rerio | Zebrafish | NP_001020636 | Sox 8 |
| Takifugu rubripes | Pufferfish | NP_001072112 | Sox 8 |
| Paralichthys olivaceus | Olive flounder | ACO40490 | Sox 9 |
| Xenopus laevis | African clawed frog | AFK08429 | Sox 9 |
| Mus musculus | Mouse | NP_035578 | Sox 9 |
| Gadus morhua | Atlantic cod | ADV03670 | Sox 9 |
| Trachemys scripta | Red-eared slider turtle | ACG70782 | Sox 9 |
| Aspidoscelis inornata | Little striped whiptail | ABQ44208 | Sox 9 |
| Epinephelus coioides | Orange spotted grouper | ACZ51153 | Sox 9 |
| Alligator mississippiensis | American alligator | AAD17974 | Sox 9 |
| Lepidochelys olivacea | Olive ridley sea turtle | ACT82009 | Sox 9 |
| Crocodylus palustris | Mugger crocodile | ACU12296 | Sox 9 |
| Oreochromis aureus | Blue tilapia | ABY66377 | Sox 9 |
| Scyliorhinus canicula | Small-spotted catshark | ABY71239 | Sox 9 |
| Oryzias latipes | Japanese medaka | NP_001098555 | Sox 9 |
| Gallus gallus | Chicken | NP_989612 | Sox 9 |
| Danio rerio | Zebrafish | NP_571718 | Sox 9 |
| Takifugu rubripes | Pufferfish | AF329945_3 | Sox 9 |
| Oryctolagus cuniculus | European rabbit | XP_002723578 | Sox 10 |
| Mus musculus | Mouse | NP_035567 | Sox 10 |
| Danio rerio | Zebrafish | NP_571950 | Sox 10 |
| Gallus gallus | Chicken | NP_990123 | Sox 10 |
| Xenopus laevis | African clawed frog | NP_001082358 | Sox 10 |
| Paramisgurnus dabryanus | Carp | AFD97051 | Sox 10 |
| Misgurnus anguillicaudatus | Oriental weatherfish | AFD97052 | Sox 10 |
| Oryzias latipes | Japanese medaka | NP_001158343 | Sox 10 |
| Epinephelus coioides | Orange spotted grouper | AFF57872 | Sox 10 |
| Ambystoma mexicanum | Salamander | ABI97016 | Sox 10 |
| Xenopus tropicalis | Western clawed frog | AAI36048 | Sox 10 |
| Cynoglossus semilaevis | Tongue sole | ABW87298 | Sox 10 |
| Outgroups | Common Name | Protein Accession # | HMG Domain |
|---|---|---|---|
| Mus musculus | Mouse | CAA49779 | Sox 4 |
| Xenopus laevis | African clawed frog | NP_001165672 | Sox 4 |
| Takifugu rubripes | Japanese medaka | AAQ18501 | Sox 4 |
| Danio rerio | Zebrafish | CAE18168 | Sox 4 |