Mapping Data

Experiment

• Experiment
  TEXT-QTL
• Chromosome
  2
• Reference
  J:175683 Parker CC, et al., Fine-mapping alleles for body weight in LG/J x SM/J F(2) and F (34) advanced intercross lines. Mamm Genome. 2011 Oct;22(9-10):563-71
• ID
  MGI:6148259

Genes

Gene	Assay Type
Bodwtq2	visible phenotype

Notes

• Experiment
  The present study measured variation in body weight using a combined analysis in an F2 intercross and an F34 advanced intercross line (AIL). Both crosses were derived from inbred LG/J and SM/J mice, which were selected, respectively, for large and small body size prior to inbreeding. Eleven significant QTLs that affected body weight were identified on ten different chromosomes.
  
  From 140 F33 mice (Chev:LG;SM-G33) from the laboratory of Dr. James Cheverud (Washington University,St. Louis, MO), 119 were successfully bred to create an F34 generation (n = 701, 343 females and 358 males) in which phenotypes were measured. Mice were weighed when they were approximately 2 months old at the same time of day during the light phase of the day using a Fisher Scout II scale. For the F34 mice, a custom SNP array was designed that assayed SNPs using the Illumina Infinium Platform. SNPs were chosen to provide uniform coverage of the mouse genome and contained *4,000 markers that were polymorphic between the LG/J and SM/J strains.
  
  Genome-wide association analysis was performed in the combined population of the F2 and F34 intercrosses using the R package QTLRel. Because of the well known effects of sex on bodyweight, genetic models where sex was included as an additive covariate were explored.
  Multiple-QTL model selection was performed using forward selection and backward elimination on the integrated populations. The resulting full model consisted of 11 QTLs, Table 1:
  
  QTL Bodwtq1 (body weight QTL 1) mapped to Chromosome 1 with a LOD score of 8.10 peaking at 136.18 Mb with a CI that spanned 133.16-137.59 Mb and accounted for 1.2% of trait variance.
  
  QTL Bodwtq2 (body weight QTL 2) mapped to Chromosome 2 with a LOD score of 7.70 peaking at 154.43 Mb with a CI that spanned 153.44-156.37 Mb and accounted for 1.1% of trait variance.
  
  QTL Bodwtq3 (body weight QTL 3) mapped to Chromosome 4 with a LOD score of 14.04 peaking at 54.62 Mb with a CI that spanned 53.93-55.82 Mb and accounted for 1.9% of trait variance.
  
  QTL Bodwtq4 (body weight QTL 4) mapped to Chromosome 6 with a LOD score of 13.59 peaking at 77.07 Mb with a CI that spanned 76.09-81.85 Mb and accounted for 2.1% of trait variance.
  
  QTL Bodwtq5 (body weight QTL 5) mapped to Chromosome 6 with a LOD score of 12.56 peaking at 143.98 Mb with a CI that spanned 142.67-144.50 Mb and accounted for 2.1% of trait variance.
  
  QTL Bodwtq6 (body weight QTL 6) mapped to Chromosome 7 with a LOD score of 15.56 peaking at 118.25 Mb with a CI that spanned 114.79-120.60 Mb and accounted for 2.2% of trait variance.
  
  QTL Bodwtq7 (body weight QTL 7) mapped to Chromosome 8 with a LOD score of 11.73 peaking at 47.65 Mb with a CI that spanned 28.87-47.66 Mb and accounted for 3.1% of trait variance.
  
  QTL Bodwtq8 (body weight QTL 8) mapped to Chromosome 9 with a LOD score of 9.25 peaking at 50.09 Mb with a CI that spanned 47.86-50.19 Mb and accounted for 1.2% of trait variance.
  
  QTL Bodwtq9 (body weight QTL 9) mapped to Chromosome 10 with a LOD score of 8.89 peaking at 88.68 Mb with a CI that spanned 87.27-92.82 Mb and accounted for 1.3% of trait variance.
  
  QTL Bodwtq10 (body weight QTL 10) mapped to Chromosome 11 with a LOD score of 7.91 peaking at 94.39 Mb with a CI that spanned 90.65-97.67 Mb and accounted for 1.1% of trait variance.
  
  QTL Bodwtq11 (body weight QTL 11) mapped to Chromosome 14 with a LOD score of 6.50 peaking at 93.99 Mb with a CI that spanned 87.93-102.70 Mb and accounted for 0.9% of trait variance.
  
  All Mb positions were based on Build 37; and, as expected, all LG/J alleles were associated with higher body weights. Supplemental Table 2 is a list of potential candidate genes with non-synonymous SNPs.