TABLE 1.
Maximum LOD scores for all 29 traits measured in Little Lake and Crescent Pond mapping crosses.
| Trait | Population | Scaffold | Max LOD | Genome‐wide significance | n | PVE | x2 p‐value |
|---|---|---|---|---|---|---|---|
| Lower Jaw Length | Crescent Pond | 53, 7087, 2336, 6275, 26, 7335 | 2.89 | 205 | 6.29 | .0013 | |
| Little Lake | 24, 4028, 58, 16 | 3.30 | 228 | 6.45 | .0005 | ||
| Jaw closing In‐Lever | Crescent Pond | 31, 4, 451, 19 | 3.60 | 204 | 7.81 | .0002 | |
| Little Lake | 8, 9588, 8020 | 4.11 | · | 227 | 7.99 | .0001 | |
| Jaw Opening In‐Lever | Crescent Pond | 6086, 11 | 2.43 | 205 | 5.32 | .0037 | |
| Little Lake | 43 | 2.98 | 227 | 5.87 | .0010 | ||
| Palatine Height | Crescent Pond | 34, 22, 6304 | 2.90 | 205 | 6.31 | .0013 | |
| Little Lake | 11 | 2.73 | 228 | 5.36 | .0019 | ||
| Suspensorium Length | Crescent Pond | 46, 37, 31, 26, 60, 7556, 10,198, 22 | 3.54 | 204 | 7.68 | .0003 | |
| Little Lake | 11 | 3.51 | 227 | 6.88 | .0003 | ||
| Dentigerous Arm Width | Crescent Pond | 52, 13,137, 40 | 2.19 | 202 | 4.87 | .0065 | |
| Little Lake | 24, 4028, 58, 16 | 4.05 | ·* | 228 | 7.85 | .0001 | |
| Maxilla Length | Crescent Pond | 27, 593, 4, 31, 451, 19 | 2.67 | 204 | 5.85 | .0021 | |
| Little Lake | 56 | 3.03 | 228 | 5.94 | .0009 | ||
| Dentigerous Arm Base | Crescent Pond | 27, 593, 4, 31, 451, 19 | 2.98 | 205 | 6.47 | .0011 | |
| Little Lake | 26 | 3.70 | 228 | 7.21 | .0002 | ||
| Dentigerous Arm Depth | Crescent Pond | 6086, 11, 46 | 4.20 | ·* | 205 | 9.00 | .0001 |
| Little Lake | 5 | 3.70 | · | 217 | 7.55 | .0002 | |
| Ascending Process Length | Crescent Pond | 27, 593, 4, 31, 451, 19 | 2.70 | 201 | 6.00 | .0020 | |
| Little Lake | 46, 37 | 3.70 | 210 | 7.79 | .0002 | ||
| Maxillary Head Height | Crescent Pond | 6086, 11, 46 | 2.33 | 205 | 5.11 | .0046 | |
| Little Lake | 7, 30 | 2.19 | 228 | 4.33 | .0064 | ||
| Ectopterygoid | Crescent Pond | 14, 9, 16, 5405, 11,419 | 2.81 | 205 | 6.11 | .0016 | |
| Little Lake | 9 | 3.36 | 228 | 6.56 | .0004 | ||
| Maxillary Head Protrusion | Crescent Pond | 58, 24, 41, 47 | 2.70 | 205 | 5.88 | .0020 | |
| Little Lake | 7431, 53, 6275, 2336, 25 | 4.03 | · * | 228 | 7.82 | .0001 | |
| Nasal Tissue Protrusion | Crescent Pond | 46, 37, 31, 26, 60, 7556, 10,198, 22 | 2.25 | 205 | 4.93 | .0056 | |
| Little Lake | 9 | 3.69 | 228 | 7.18 | .0002 | ||
| Orbit Diameter | Crescent Pond | 9588, 8, 8020 | 2.34 | 205 | 5.13 | .0045 | |
| Little Lake | 52, 40, 41 | 2.58 | 227 | 5.10 | .0026 | ||
| Cranial Height | Crescent Pond | 33, 39 | 3.59 | · | 205 | 7.74 | .0003 |
| Little Lake | 33 | 3.94 | · | 224 | 7.78 | .0001 | |
| Head Depth | Crescent Pond | 16, 40 | 2.98 | 204 | 6.51 | .0010 | |
| Little Lake | 52, 40, 41 | 2.71 | 223 | 5.45 | .0019 | ||
| Pelvic Girdle Length | Crescent Pond | 31, 18, 15, 11,057, 55, 52 | 2.68 | 203 | 5.90 | .0021 | |
| Little Lake | 27, 37, 7 | 2.87 | 226 | 5.68 | .0014 | ||
| Premaxilla Pelvic Girdle | Crescent Pond | 37, 46, 7556, 10,198 | 3.15 | 202 | 6.92 | .0007 | |
| Little Lake | 35, 38, 20, 8508, 10,278, 33 | 2.63 | 231 | 5.10 | .0024 | ||
| Standard Length (mm) | Crescent Pond | 14, 9, 16, 5405, 11,419 | 2.90 | 204 | 6.34 | .0013 | |
| Little Lake | 31, 46, 37 | 3.48 | 231 | 6.69 | .0003 | ||
| Cranium Dorsal Fin | Crescent Pond | 6704, 52, 13,137, 40 | 2.84 | 205 | 6.18 | .0014 | |
| Little Lake | 37, 22, 7556 | 3.45 | 231 | 6.65 | .0004 | ||
| Dorsal Fin Width | Crescent Pond | 43, 26, 14,743 | 2.18 | 205 | 4.78 | .0066 | |
| Little Lake | 842, 44, 1074, 6, 30 | 3.00 | 230 | 5.83 | .0010 | ||
| Dorsal Fin Height | Crescent Pond | 18, 31, 15, 11,057, 55 | 2.84 | 203 | 6.23 | .0015 | |
| Little Lake | 43 | 3.50 | 222 | 7.00 | .0003 | ||
| Anterior Body Depth | Crescent Pond | 8, 8020 | 2.94 | 204 | 6.43 | .0011 | |
| Little Lake | 6094, 5, 4 | 3.33 | 230 | 6.45 | .0005 | ||
| Posterior Body Depth | Crescent Pond | 20, 471, 39, 8508, 33 | 2.86 | 203 | 6.27 | .0014 | |
| Little Lake | 18, 15 | 3.02 | 228 | 5.92 | .0009 | ||
| Caudal Peduncle Length | Crescent Pond | 31, 18, 15, 11,057, 55, 52 | 2.87 | 203 | 6.30 | .0014 | |
| Little Lake | 24, 4028, 58, 16 | 2.16 | 230 | 4.23 | .0070 | ||
| Anal Fin Width | Crescent Pond | 18, 15, 11,057, 55 | 2.89 | 201 | 6.41 | .0013 | |
| Little Lake | 6, 842, 44, 1074, 30 | 2.40 | 229 | 4.71 | .0040 | ||
| Anal Fin Height | Crescent Pond | 43, 26, 14,743 | 2.93 | 201 | 6.48 | .0012 | |
| Little Lake | 8, 9588, 8020 | 3.15 | 229 | 6.14 | .0007 | ||
| Caudal Peduncle Height | Crescent Pond | 53, 7087, 2336, 6275, 26, 7335 | 1.97 | 205 | 4.32 | .0108 | |
| Little Lake | 47, 1962 | 3.32 | 230 | 6.44 | .0005 | ||
| Adductor | Crescent Pond | 6086, 11 | 3.56 | · | 170 | 9.18 | .0003 |
| Little Lake | ‐ | ‐ | ‐ | ‐ | ‐ | ‐ | |
| Proportion Time Spent Near Scale‐Eater Mates | Crescent Pond | 58, 24, 41, 47 | 2.05 | 74 | 12.00 | .0089 | |
| Little Lake | ‐ | ‐ | ‐ | ‐ | ‐ | ‐ |
Note: A genome scan with a single‐QTL model by Haley–Knott regression was used to identify the position with the highest LOD score, 95% Bayesian credible intervals, and the genome‐wide significance level for each trait (p < .1: ·; p < .05: *). We also report the scaffold numbers of genomic regions that fell within the 95% credible intervals associated with the maximum LOD position for each trait, the number of individuals phenotyped, percent variance explained (PVE) by the max LOD region, and the uncorrected p‐value associated with each max LOD region.