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. 2015 Aug 12;10(8):e0135488. doi: 10.1371/journal.pone.0135488

Table 5. QTL detected for microbiota composition.

QTL number Trait GGA Position (M) Confidence interval (M) 1 Markers flanking the confidence interval NF 2 Effect 4 Chromosomewide P level Genome wide P level N genes in the region 6
1 Log(L. crispatus)/ Log(C. coccoides) 1 2.560 2.541–2.567 Gga_rs13911828, GGa_rs13913250 3F 3 0.814 0.048 NS 5 14
2 Log(C. leptum)/ Log(Lactobacillus) 2 2.390 2.325–2.400 Gga_rs15142674, GgaluGA164535 5 0.552 0.047 NS 42
3 Log(L. salivarius)/ Log(Lactobacillus) 3 2.320 2.301–2.336 Gga_rs16324984, Gga_rs14399484 2 0.860 0.037 NS 18
4 Log(L. crispatus)/ Log(C. leptum) 6 0.630 0.581–0.839 Gga_rs14579919, Gga_rs15807987 3 0.677 0.028 NS 220
5 Log(C. leptum) 6 0.920 0.912–0.950 Gga_rs15813564, Gga_rs16565135 6 0.895 <0.0001 0.090 36
6 Log(C. leptum)/ Log(Lactobacillus) 6 0.980 0.620–1.009 GgaluGA300856, Gga_rs16006607 5 0.903 0.043 NS 306
7 Log(C. leptum)/ Log(Lactobacillus) 8 0.600 0.000–0.141 Gga_rs15892308, GgaluGA323478 4F 0.605 0.023 NS 129
8 Log(Coli)/ Log(Lactobacillus) 12 0.090 0.081–0.115 Gga_rs15632811, Gga_rs14032854 4F 0.520 0.029 NS 50
9 Log(L. crispatus)/ Log(C. coccoides) 14 0.240 0.235–0.246 GgaluGA101400, GgaluGA101629 3 0.897 0.029 NS 8
10 Log(L. crispatus) 14 0.240 0.235–0.244 GgaluGA101400, Gga_rs14074053 2F 1.241 0.019 NS 6
11 Log(L. salivarius)/ Log(Lactobacillus) 14 0.480 0.440–0.561 Gga_rs15738570, GgaluGA104485 3 0.591 0.014 NS 64
12 Log(C. leptum)/ Log(C. coccoides) 18 0.153 0.143–0.324 GgaluGA119123, GgaluGA121355 4 0.476 0.048 NS 152
13 Log(L. salivarius)/ Log(C. leptum) 21 0.480 0.429–0.520 Gga_rs14285137, Gga_rs14286198 3F 0.605 0.045 NS 53
14 Log(L. salivarius)/ Log(Lactobacillus) 26 0.310 0.268–0.344 GgaluGA196721, Gga_rs15235289 3 0.532 0.048 NS 74

1 1-LOD-drop off confidence interval (lower and upper boundaries, cM)

2 Number of F1 sires families heterozygous for the QTL (P<0.05, Student test)

3 F: the QTL is fixed in F1 sires families in which it is significant

4 QTL effect as a proportion of the phenotypic standard deviation of trait

5 NS: P>0.150 at the genome wide level

6 Number of genes in the QTL region, as found by http://annotqtl.genouest.org/ interrogation