Table 4 Suggestive and significant QTL for trait hours of survival after challenge with A. hydrophila detected using PLINK (QFAM) and GenAbel (FASTA and GRAMMA) analyses in 21 L. rohita families
LG | Pos | SNP | Test | N | Effect | Stat | P-value | Sig | GeneID |
|---|---|---|---|---|---|---|---|---|---|
1 | 37.3 | 55086_181 | FASTA | 963 | -2.22(0.82) | 7.32 | 0.0068 | Small heat shock | |
1 | 37.3 | 55086_181 | GRAMMA | 963 | -1.18 (0.56) | 4.47 | 0.00538 | Small heat shock | |
2 | 43.9 | 121615_93 | QFAM | 1021 | -1.449 | 0.00675 | |||
2 | 47.4 | 6937_74 | QFAM | 1022 | 1.48 | 0.00772 | |||
2 | 48.4 | 61599_86 | QFAM | 1022 | 1.48 | 0.00708 | |||
2 | 48.4 | 83153_20 | QFAM | 1022 | 1.48 | 0.00775 | |||
3 | 20.3 | 68284_87 | GRAMMA | 979 | -1.12 (0.57) | 3.85 | 0.00979 | ||
4 | 0 | 84080_123 | GRAMMA | 978 | 1.05 (0.5) | 4.4 | 0.00575 | ||
4 | 0 | 84080_123 | QFAM | 1021 | 1.708 | 0.00232 | |||
4 | 19.7 | 65405_244 | FASTA | 979 | -2.07(0.73) | 7.95 | 0.00482 | ||
4 | 19.7 | 65405_244 | GRAMMA | 979 | -1.26 (0.55) | 5.21 | 0.00268 | ||
4 | 46.8 | 110358_408 | FASTA | 979 | 2.18(0.71) | 9.33 | 0.00226 | c-type natriuretic peptide 1 precursor | |
4 | 46.8 | 110358_408 | GRAMMA | 979 | 1.3 (0.53) | 5.96 | 0.00131 | * | c-type natriuretic peptide 1 precursor |
4 | 46.8 | 110358_408 | QFAM | 1022 | 2.058 | 0.00867 | c-type natriuretic peptide 1 precursor | ||
5 | 9.6 | 4797_109 | FASTA | 978 | -1.57(0.55) | 8.06 | 0.00452 | ||
5 | 9.6 | 4797_109 | GRAMMA | 978 | -0.92 (0.41) | 5.06 | 0.00307 | ||
5 | 23.8 | 83820_94 | FASTA | 979 | -2.05(0.72) | 8.14 | 0.00434 | Brain specific kinase 146 | |
5 | 23.8 | 83820_94 | GRAMMA | 979 | -0.97 (0.48) | 4.12 | 0.00753 | Brain specific kinase 146 | |
5 | 38.3 | 1886_343 | FASTA | 979 | 1.71(0.64) | 7.24 | 0.00712 | loc100037090 protein | |
5 | 38.3 | 1886_343 | QFAM | 1022 | 1.826 | 0.00577 | loc100037090 protein | ||
5 | 43.4 | 53540_630 | FASTA | 976 | 2.76(0.92) | 9.03 | 0.00265 | protein phosphatase regulatory subunit 10 | |
5 | 43.4 | 53540_630 | GRAMMA | 976 | 1.28 (0.59) | 4.71 | 0.00429 | Protein phosphatase Regulatory subunit 10 | |
5 | 43.4 | 75322_75 | QFAM | 1022 | -1.517 | 0.00759 | |||
7 | 23.4 | 62374_157 | FASTA | 968 | -3.59(1.04) | 11.99 | 0.00053 | * | |
7 | 23.4 | 62374_157 | GRAMMA | 968 | -2.26 (0.8) | 7.99 | 0.0002 | ** | |
7 | 23.4 | 62374_157 | QFAM | 1016 | -4.763 | 0.0041 | |||
7 | 53.7 | 87974_385 | GRAMMA | 979 | -0.95 (0.48) | 3.96 | 0.00886 | sec14-like 1 (cerevisiae) | |
8 | 23.3 | 136056_232 | GRAMMA | 979 | -1.04 (0.47) | 4.89 | 0.00362 | ||
8 | 54.9 | 31265_40 | QFAM | 1022 | 1.369 | 0.00338 | cd22 antigen | ||
10 | 29.6 | 82862_249 | FASTA | 979 | -1.99(0.73) | 7.32 | 0.00683 | ||
10 | 29.6 | 82862_249 | GRAMMA | 979 | -1.11 (0.53) | 4.39 | 0.00582 | ||
12 | 31.1 | 57295_319 | QFAM | 1022 | -1.117 | 0.00924 | |||
12 | 37.8 | 52515_4545 | QFAM | 1022 | 1.667 | 0.0088 | titin a | ||
12 | 37.8 | 63497_114 | QFAM | 1022 | 1.667 | 0.009 | Unnamed protein product [Tetraodon nigroviridis] | ||
13 | 19.8 | 64435_287 | QFAM | 1022 | 1.813 | 0.00376 | Proline rich 5 | ||
14 | 1.9 | 132996_241 | QFAM | 1021 | 1.646 | 0.00159 | * | ||
14 | 12.5 | 112228_90 | FASTA | 979 | 2.09(0.65) | 10.32 | 0.00132 | * | |
14 | 12.5 | 112228_90 | GRAMMA | 979 | 1.02 (0.44) | 5.43 | 0.00216 | ||
14 | 24.1 | 96692_167 | FASTA | 979 | 1.53(0.59) | 6.79 | 0.00918 | Novel protein prickle-like family | |
14 | 43.9 | 113696_50 | FASTA | 976 | -3.39(1.15) | 8.75 | 0.0031 | Perforin 1 (pore forming protein) | |
14 | 43.9 | 113696_50 | GRAMMA | 976 | -2.22 (0.91) | 5.92 | 0.00137 | * | Perforin 1 (pore forming protein) |
15 | 1.1 | 13736_229 | GRAMMA | 979 | -1 (0.5) | 4.01 | 0.00844 | ||
15 | 12.5 | 55466_266 | QFAM | 1022 | 1.383 | 0.00078 | * | sept2 protein | |
15 | 26.7 | 110434_333 | FASTA | 979 | -1.93(0.75) | 6.72 | 0.00956 | t cell antigen receptor alpha chain c region | |
15 | 26.7 | 110434_333 | GRAMMA | 979 | -1.18 (0.56) | 4.39 | 0.00584 | t cell antigen receptor alpha chain c region | |
15 | 28.9 | 54100_91 | FASTA | 979 | 2.06(0.68) | 9.11 | 0.00255 | cerebellin 1 precursor | |
15 | 28.9 | 60130_224 | FASTA | 978 | -1.95(0.66) | 8.7 | 0.00318 | ||
15 | 28.9 | 60130_224 | GRAMMA | 978 | -0.99 (0.46) | 4.71 | 0.00429 | ||
15 | 54.4 | 94824_55 | QFAM | 1022 | -1.559 | 0.00057 | * | Adaptor-related protein complex mu 1 subunit | |
16 | 23.8 | 115737_104 | QFAM | 1020 | -1.206 | 0.0094 | mucin-5b precursor (mucin 5 subtype tracheobronchial) (high molecular weight salivary mucin mg1) (sublingual gland mucin) | ||
16 | 39.2 | 136477_76 | QFAM | 1022 | 2.121 | 0.00687 | sp2 transcription factor | ||
18 | 8.4 | 60684_109 | GRAMMA | 978 | -0.89 (0.45) | 3.88 | 0.00958 | ||
18 | 48.9 | 52766_1600 | FASTA | 979 | -1.8(0.69) | 6.81 | 0.00909 | solute carrier family 25 (mitochondrial carrier phosphate carrier) member 25 | |
18 | 49.9 | 116665_768 | FASTA | 979 | 1.95(0.63) | 9.62 | 0.00193 | * | ptc7 protein phosphatase homolog (cerevisiae) |
18 | 49.9 | 116665_768 | GRAMMA | 979 | 1.14 (0.46) | 6.04 | 0.00122 | * | ptc7 protein phosphatase homolog (cerevisiae) |
18 | 49.9 | 13427_160 | FASTA | 979 | 2.06(0.67) | 9.48 | 0.00208 | ||
18 | 49.9 | 13427_160 | GRAMMA | 979 | 1.13 (0.48) | 5.58 | 0.00188 | * | |
19 | 23.8 | 111569_63 | FASTA | 979 | 2.49(0.77) | 10.44 | 0.00123 | * | tbt-binding protein |
19 | 23.8 | 111569_63 | GRAMMA | 979 | 1.35 (0.55) | 6.07 | 0.00119 | * | tbt-binding protein |
20 | 0.8 | 54931_324 | GRAMMA | 979 | 1.16 (0.59) | 3.86 | 0.0097 | solute carrier family member 34 | |
20 | 3.3 | 134730_80 | FASTA | 970 | -2.64(0.69) | 14.81 | 0.00012 | ** | |
20 | 3.3 | 134730_80 | GRAMMA | 970 | -0.99 (0.41) | 5.89 | 0.00141 | * | |
20 | 3.3 | 134730_80 | QFAM | 1013 | -2.504 | 0.0047 | |||
20 | 7.9 | 88771_72 | FASTA | 954 | -1.53(0.58) | 6.89 | 0.00866 | ||
20 | 9.4 | 103839_124 | FASTA | 970 | 2.22(0.81) | 7.54 | 0.00603 | ||
20 | 9.4 | 103839_124 | GRAMMA | 970 | 1.07 (0.54) | 3.86 | 0.00974 | ||
20 | 9.4 | 110140_1196 | FASTA | 979 | 1.6(0.6) | 7.06 | 0.00787 | glycerol-3-phosphate dehydrogenase | |
20 | 9.4 | 110140_1196 | GRAMMA | 979 | 0.82 (0.42) | 3.9 | 0.00938 | glycerol-3-phosphate dehydrogenase | |
20 | 11.1 | 59816_21 | QFAM | 1022 | -1.607 | 0.00152 | * | novel protein vertebrate stabilin 2 | |
20 | 20.3 | 134434_222 | FASTA | 978 | -2.03(0.76) | 7.09 | 0.00776 | ||
20 | 21.6 | 20086_69 | QFAM | 1022 | 1.556 | 0.00996 | vacuolar protein sorting 4b | ||
21 | 47.1 | 111636_59 | QFAM | 1022 | 1.417 | 0.0044 | kiaa1219 protein | ||
21 | 51.1 | 54579_132 | FASTA | 979 | 1.63(0.55) | 8.68 | 0.00321 | ||
21 | 51.1 | 54579_132 | GRAMMA | 979 | 1.04 (0.43) | 5.95 | 0.00133 | * | |
22 | 6 | 88524_52 | FASTA | 979 | 1.55(0.57) | 7.31 | 0.00687 | ||
22 | 6 | 88524_52 | GRAMMA | 979 | 0.97 (0.44) | 4.9 | 0.00357 | ||
22 | 6.4 | 94914_114 | FASTA | 979 | 2.07(0.68) | 9.2 | 0.00242 | ||
22 | 6.4 | 94914_114 | GRAMMA | 979 | 0.86 (0.42) | 4.09 | 0.00775 | ||
22 | 22.3 | 58881_141 | QFAM | 1022 | -1.781 | 0.00352 | tuberous sclerosis 1 | ||
22 | 23.2 | 554_399 | FASTA | 979 | -1.89(0.72) | 6.94 | 0.00841 | dipeptidyl peptidase 7 | |
22 | 23.2 | 554_399 | GRAMMA | 979 | -0.98 (0.5) | 3.86 | 0.00974 | dipeptidyl peptidase 7 | |
23 | 0 | 93296_256 | FASTA | 978 | 3.71(0.95) | 15.3 | 0.00009 | ** | loc795887 protein |
23 | 0 | 93296_256 | GRAMMA | 978 | 2.28 (0.72) | 10.11 | 0.00003 | *** | loc795887 protein |
23 | 0.9 | 110253_351 | FASTA | 979 | 2.35(0.77) | 9.27 | 0.00232 | novel protein | |
23 | 0.9 | 110253_351 | GRAMMA | 979 | 1.27 (0.55) | 5.36 | 0.00232 | novel protein | |
23 | 27.4 | 64731_210 | QFAM | 1022 | 1.41 | 0.00308 | |||
24 | 55.9 | 67606_298 | FASTA | 979 | -3.63(1.14) | 10.21 | 0.0014 | * | serine long chain base subunit 1 |
24 | 55.9 | 67606_298 | GRAMMA | 979 | -2.07 (0.83) | 6.25 | 0.00101 | * | serine long chain base subunit 1 |
25 | 46.1 | 54056_576 | FASTA | 979 | 1.7(0.65) | 6.87 | 0.00876 | n-ethylmaleimide sensitive fusion protein attachment protein alpha |