Table 3. Fixed amino acid differences between coastal (eastern freshwater cod and Mary River cod) and inland (Murray cod and trout cod) Maccullochella species.
| OXPHOS complex | Codon | Gene | Ancestral state |
Inland |
Coastal |
TREESAP Significant properties (P<0.001, categories 6–8) | ||
|---|---|---|---|---|---|---|---|---|
| Murray | Trout | Mary River | Eastern freshwater | |||||
| I | 252 | ND1 | S | S | S | L | L | ↑ RF |
| I | 62 | ND2 | V | V | V | I | I | ↓pK' |
| I | 243 | ND2 | L | L | L | F | F | — |
| I | 293 | ND2 | V | V | V | I | I | ↓pK' |
| V | 14 | ATPase 6 | F | F | F | L | L | — |
| V | 48 | ATPase 6 | S | S | S | N | N | — |
| IV | 40 | COIII | M | M | M | T | T | ↓Pα |
| IV | 168 | COIII | V | V | I | A | A | — |
| I | 108 | ND3 | T | T | T | M | M | ↓Pα |
| I | 68 | ND4 | T | T | T | I | I | — |
| I | 357 | ND4 | A | A | A | T | T | ↓Pα |
| I | 395 | ND4 | T | T | T | A | A | ↓Pα |
| I | 448 | ND5 | H | S | H | F | F | — |
Standard amino acid codes are given for each species and the inferred ancestral state (reconstructed using CODEML). Codon number refers to codon number in gene. Bold font indicates properties with evidence of positive selection based on global Z scores. TREESAAP codes for properties are: RF=Chromatographic index, pK'=Equilibrium Constant – ionisation, COOH, Pα=α−helical tendencies. Increase or decrease in amino acid properties from inland to coast is indicated with up and down arrows.