Table 6.
QTL mapping of metabolic traits
| Trait | N | Covariate | LOD 5% | LOD 10% | LOD peak | PVE | Peak marker LG position | Scaffold | bp position |
|---|---|---|---|---|---|---|---|---|---|
| Blood glucose start | 108 | None | 4.22 | 3.81 | 7.16 | 26.31 | r18170 9 150.9 | KB871607 | 839,363 |
| Blood glucose end | 196 | None | 3.92 | 3.61 | 5.85 | 12.84 | r110832 9 151.8 | KB872022 | 216,703 |
| Weight start | 219 | add_int | 7.35 | 6.59 | 4.03 | 8.13 | r197874 19 36 | KB882103 | 5,600,729 |
| Weight start | 219 | Int | 7.35 | 6.59 | 5.86 | 11.59 | r230947 13 151 | KB882132 | 1,682,036 |
| Weight 4month | 210 | add_int | 7.00 | 6.55 | 4.01 | 8.42 | r91812 19 64.3 | KB871887 | 492,183 |
| Weight 4month | 210 | Int | 7.00 | 6.55 | 5.46 | 11.28 | r230947 13 151.0 | KB882132 | 1,682,036 |
| Length start | 216 | add_int | 5.93 | 5.41 | 5.03 | 10.17 | r231495 13 144 | KB882132 | 577,777 |
| Length start | 216 | Int | 5.93 | 5.41 | 5.22 | 10.53 | r91812 19 64.3 | KB871887 | 492,183 |
| Length start | 216 | sex_int | 2.77 | 2.37 | 3.63 | 7.45 | r113255 25 90.7 | KB872047 | 277,233 |
| Length end | 199 | add_int | 5.75 | 5.27 | 4.35 | 9.58 | r197874 19 36 | KB882103 | 5,600,729 |
| Length end | 199 | Int | 5.75 | 5.27 | 4.83 | 10.58 | r230947 13 151.0 | KB882132 | 1,682,036 |
| K start | 213 | add_int | 4.00 | 3.56 | 4.21 | 8.70 | r132099 2 35.1 | KB872277 | 193,967 |
| K end | 195 | Add | 3.98 | 3.68 | 5.65 | 12.49 | r134839 2 97.6 | KB872296 | 1,995,763 |
| K end | 195 | sex_int | 2.17 | 1.84 | 3.89 | 8.78 | r113674 6 107 | KB872052 | 163,270 |
| Weight change | 213 | Int | 6.62 | 6.12 | 4.8 | 9.86 | r107738 25 87.5 | KB871991 | 413,427 |
| Weight change | 213 | sex_int | 3.31 | 2.88 | 3.4 | 7.09 | r107738 25 87.5 | KB871991 | 413,427 |
| % weight change | 210 | Add | 4.03 | 3.73 | 4.04 | 8.48 | r231495 13 144 | KB882132 | 577,777 |
| Gonad weight | 180 | Int | 7.96 | 6.90 | 5.84 | 13.88 | r5323 1 41.8 | KB871579 | 6,548,071 |
| Gonad weight | 180 | Int | 7.96 | 6.90 | 5.65 | 13.46 | r28416 19 75.4 | KB871633 | 1,033,602 |
| Gonad weight | 180 | Int | 7.96 | 6.90 | 4.99 | 11.99 | r47899 22 143.9 | KB871694 | 475,774 |
| Gonad weight | 180 | sex_int | 3.79 | 3.23 | 3.03 | 7.46 | r5323 1 41.8 | KB871579 | 6,548,071 |
| Weightgonad | 181 | Int | 6.76 | 6.14 | 5.3 | 12.62 | r230947 13 151 | KB882132 | 1,682,036 |
| Normalized gonad | 140 | Int | 6.76 | 6.29 | 6.25 | 18.58 | r177364 1 76.5 | KB882087 | 2,900,519 |
| Normalized gonad | 140 | Int | 6.76 | 6.29 | 5.37 | 16.19 | r104862 22 178.1 | KB871966 | 141,642 |
| Normalized gonad | 140 | Int | 6.76 | 6.29 | 5.4 | 16.27 | r1393 24 29.5 | KB871578 | 4,785,777 |
| Normalized gonad | 140 | sex_int | 3.26 | 2.97 | 3.63 | 11.26 | r177364 1 76.5 | KB882087 | 2,900,519 |
| Muscle TAG | 192 | None | 4.10 | 3.70 | na | ||||
| Visceral fat area | 119 | None | 4.28 | 3.89 | na | ||||
| Liver area | 185 | add_int | 6.07 | 5.64 | 4.37 | 10.31 | r154446 7 153 | KB873184 | 12,227 |
| Liver area | 185 | Int | 6.07 | 5.64 | 5.38 | 12.53 | r230914 13 150.8 | KB882132 | 1,586,871 |
| Liver area | 185 | Int | 6.07 | 5.64 | 6.39 | 14.71 | r28572 19 74.2 | KB871633 | 467,313 |
| Liver area | 185 | sex_int | 2.93 | 2.50 | 3.16 | 7.56 | r248014 7 153 | KB882149 | 2,507,088 |
| Midgut length | 196 | sex_int | 5.09 | 4.75 | 3.43 | 7.74 | r195661 4 145 | KB882102 | 1,812,243 |
| Hindgut length | 196 | add_int | 4.05 | 3.65 | 4.64 | 10.33 | r172341 10 68.3 | KB882083 | 490,666 |
| Hindgut length | 196 | sex_int | 2.30 | 1.95 | 3.14 | 7.11 | r33595 6 62.4 | KB871649 | 380,272 |
| R liver area | 185 | add_int | 5.81 | 5.40 | 5.62 | 13.06 | r154446 7 153 | KB873184 | 12,227 |
| R liver area | 185 | sex_int | 2.79 | 2.43 | 2.95 | 7.08 | r170604 21 12.8 | KB882082 | 730,436 |
| R midgut length | 194 | Add | 5.23 | 4.78 | na | ||||
| R hindgut length | 194 | add_int | 5.11 | 4.79 | 4.68 | 10.51 | r172341 10 68.3 | KB882083 | 490,666 |
| R hindgut length | 194 | sex_int | 2.29 | 1.88 | 3.83 | 8.69 | r59663 4 220 | KB871744 | 301,165 |
Significant traits in bold. Number of individuals (N), covariate model (add=additive, int=interactive, sex_int=sex interacting QTL), logarithm of the odds (LOD) significance thresholds, peak marker LOD score, percent variance explained (PVE),peak marker name and position on indicated linkage group (LG) in centimorgans, and position on Pachn cavefish genome scaffold in base pairs (bp). Abbreviations for traits: body condition factor (K), triglyceride (TAG), length relative to standard fish length (R)