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Table 1 QTL statistics for the microbiome traits in the G 10 mouse population

From: Host genetics and diet, but not immunoglobulin A expression, converge to shape compositional features of the gut microbiome in an advanced intercross population of mice

Trait Best hit (genus) Ch Position (Mb) CI (Mb) LOD FDR a d % Interaction
OTU15028 Blautia 1 49.1 43.3-50.7 4.53* 0.404 -0.20 -0.15 4.72 Diet (C)
Butyricicoccus   1 127.2 123.3-140.7 3.97 0.507 -0.18 0.02 4.50 Diet (HF)
ButyricicoccusOTU7   1 127.2 123.3-140.7 4.30* 0.425 -0.18 0.03 4.81 Diet (HF)
OTU18932 Prevotella 1 173.3 167.0-182.1 4.29* 0.425 0.09 0.05 4.51  
ParabacteroidesOTU6   2 59.5 57.5-62.5 4.08 0.431 0.27 0.04 5.40  
OTU24985 Alistipes 2 60.2 57.5-62.5 4.21 0.469 0 0.15 4.01  
OTU29627 Hydrogenoanaerobacterium 2 172.5 170.3-173.6 4.51* 0.404 0.01 -0.24 5.48 Sex (M)
   9 29.8 22.0-33.4 4.51* 0.404 -0.16 -0.02 4.71  
OTU23089 Clostridium 3 16.9 11.8-22.6 4.05 0.431 0.19 -0.21 3.49  
OTU26092 Blautia 3 20.4 11.8-22.6 4.97* 0.356 0.16 -0.25 3.87  
OTU17889 Roseburia 4 12.5 8.3-19.7 3.99 0.480 0.11 0.18 3.60 Diet (C)
OTU3615 Desulfotomaculum 5 115.2 112.9-118.1 4.07 0.431 -0.24 -0.28 3.82  
OTU32093 Eubacterium 6 54.0 53.1-59.2 5.08* 0.356 0.04 0.22 5.20  
OTU35558 Desulfocurvus 6 115.6 112.2-120.0 4.42* 0.469 0.09 -0.08 4.52  
Lactobacillusjohnsonii   6 126.9 122.4-131.6 4.08 0.431 -0.30 -0.11 4.12  
ATCC33200
OTU14099 Butyricimonas 8 71.6 64.4-79.1 4.66* 0.404 -0.11 -0.27 4.62  
OTU16090 Alistipes 8 74.9 64.4-79.1 4.10 0.439 -0.15 -0.25 4.20  
OTU27257 Alistipes 8 77.5 66.5-79.1 4.16 0.431 -0.11 -0.25 4.08  
OTU41353 Alistipes 9 37.3 34.6-40.9 7.99* 0.002 -0.16 -0.04 8.29  
OTU29084 Clostridium 9 40.2 33.5-42.3 4.56* 0.404 -0.11 0.06 4.79  
OTU17740 Prevotella 9 40.7 33.5-40.9 5.87* 0.139 -0.26 0.07 5.21 Diet (C)
   X 66.1 54.5-74.6 4.07 0.469 -0.18 -0.02 5.21  
OTU25269 Odoribacter 9 40.7 33.5-40.9 6.01* 0.137 -0.26 0.02 6.63 Diet (C)
OTU13989 Bacteriodes 9 40.7 40.5-42.4 4.51* 0.342 -0.10 0.13 4.20 Diet (HF)
OTU25483 Bacteriodes 9 40.7 33.5-40.9 6.04* 0.137 -0.21 0 6.83 Diet (C)
Lactococcus lactis   9 113.3 112.3-115.0 3.95 0.513 0.11 -0.07 3.71  
OTU21572 Roseburia 10 6.4 4.7-9.07 4.24 0.469 0.07 0.17 3.72  
OTU33466 Oscillibacter 11 41.8 35.1-44.5 4.12 0.469 -0.15 0.10 4.29  
OTU22207 Alistipes 11 97.8 93.4-114.0 3.97 0.463 0.05 0.11 3.31  
Odoribacter   14 17.1 10.5-20.3 4.39* 0.404 -0.04 -0.11 3.26  
OdoribacterOTU6   14 17.1 10.5-20.3 4.04 0.431 -0.04 -0.10 3.04  
OTU30840 Clostridium 14 71.1 67.6-87.5 4.67* 0.404 0.01 -0.25 6.40  
   18 68.4 65.4-70.2 3.93 0.500 -0.02 0.22 4.16  
OTU46742 Hydrogenoanaerobacterium 14 88.7 79.7-87.5 4.87* 0.404 -0.11 -0.13 4.82  
OTU20360 Bacteriodes 16 6.9 3.98-9.92 4.28* 0.425 -0.12 0.08 4.52  
AlistipesOTU15   16 44.8 42.7-48.1 4.21 0.469 -0.06 0.07 4.76 Sex (M)
Mucispirillum   16 45.7 42.7-57.8 4.72* 0.404 0.28 -0.26 6.54  
Mucispirillumschaedleri(T)   16 45.7 42.7-57.9 4.72* 0.404 0.28 -0.26 6.54  
Lactobacillus   16 63.3 51.6-70.4 4.27* 0.469 -0.10 0.31 3.77  
OTU17491 Odoribacter 17 48.7 51.9-58.2 4.11 0.439 -0.09 0.12 2.99  
OTU23606 Bacteriodes 18 83.1 83.1- 4.01 0.480 0 -0.21 4.03  
OTU29519 Clostridium 19 24.3 22.6-24.7 4.04 0.476 -0.22 0.23 4.30  
  1. Shown are all QTLs affecting the microbiota traits that had LOD scores reaching the suggestive or significant (*) threshold level of significance. The false discovery rate (FDR) also is listed for each QTL, indicating its probability of being a false positive result. Locations and confidence intervals of the QTLs are given in Mb (from NCBI Build 37). Also shown is the percentage contribution (%) of each QTL to the total variance of each trait, and its additive (a), dominance (d) genotypic effects (bolded values indicate significance). QTLs affecting the microbiota in males only = Sex (M) and in females only = Sex (F). QTLs affecting the microbiota in mice fed only the control diet = Diet (C) and for mice fed only the high-fat diet = Diet (HF).
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Genome Biology

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