Table 3

Results of a genome scan for QTL associated with stress response using a variance components approach
Omy cM Trait LOD score1 P PGenomeWide2 hu23 hq24 Left flanking marker Right flanking marker
3 116 BLUP3 0.9 0.02394 1.000 0.00 0.16 OMM1263 OMM1391b
4 112 BLUP3 0.9 0.02012 0.999 0.00 0.19 OMM1582 OMM14085
4 112 EBV 0.9 0.02012 0.999 0.00 0.17 OMM1582 OMM14085
9 77 BLUP3 1.0 0.01470 0.996 0.00 0.23 OMM1089 OMM5054
10 52 EBV 0.7 0.03736 1.000 0.01 0.46 OMM1549b OMM5312
12 39 EBV 1.9 0.00150 0.421 0.01 0.24 OMM1096 OMM11305
14 119 EBV 0.9 0.02155 1.000 0.01 0.36 OMM5153 OMM51435
16 69 BLUP3 3.3** 0.00005 0.018 0.00 0.52 OMM1150 OMM1221
17 46 EBV 1.1 0.01072 0.980 0.01 0.49 OMM5026 OMM3027
19 75 BLUP3 1.2 0.01069 0.980 0.00 0.14 OMM1739 OMM5106a5
19 114 EBV 1.0 0.01464 0.995 0.01 0.38 OMM1549a OMM1124b
22 37 EBV 0.7 0.04031 1.000 0.01 0.12 OMM1457 BX9130595
23 31 EBV 1.1 0.01373 0.994 0.01 0.39 OMM5305 OMM1623
28 58 EBV 0.9 0.02013 0.999 0.01 0.36 OMY1013UW OMYRGT51TUF
Sex 38 EBV 1.6 0.00371 0.743 0.01 0.43 OMM1715a BX076085

1Logarithm of odds (LOD) score was calculated as LOD = log10[L(QTL)/L(polygenic)] where L = likelihood of the model. QTL with LOD ≥ 2 was defined as suggestive QTL (*); and QTL with LOD ≥ 3 or PGenomeWide ≤ 0.05 was defined as significant QTL (**).

2The genome-wide significance level for detected QTL was estimated as PGenomeWide = 1 − (1 − P)g, where P is the nominal P-value, and g = 365 STR loci used with variance components method of QTL analysis.

3hu2 is the residual genetic variance or proportion of the total variance due to the polygenic component.

4hq2 is the heritability associated with the QTL or proportion of the total variance due to the QTL.

5The QTL flanking markers OMM5106a, OMM1408, OMM1130, BX913059 and OMM5143 had significant Mendelian segregation distortion (P <0.01) in families 2, 3, 4, 5 and 6, respectively.

Rexroad et al.

Rexroad et al. BMC Genetics 2012 13:97   doi:10.1186/1471-2156-13-97

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