Mapping Data

Experiment

• Experiment
  TEXT-QTL
• Chromosome
  3
• Reference
  J:114558 Bennett B, et al., Confirmation and fine mapping of ethanol sensitivity quantitative trait loci, and candidate gene testing in the LXS recombinant inbred mice. J Pharmacol Exp Ther. 2006 Oct;319(1):299-307
• ID
  MGI:3689528

Genes

Gene	Assay Type
Lore10	visible phenotype
D3Mit127	PCR amplified length variant
D3Mit86	PCR amplified length variant

Notes

• Experiment
  Analysis of 75 LXS (L= LS long sleep inbred strain; S=SS short sleep inbred strain) recombinant inbred strains replicated and confirmed previously identified QTLs associated with ethanol-induced loss or righting reflex Lore1, Lore3, Lore4, Lore5, and Lore6. Animals were tested for loss of righting reflex (n=952) and blood ethanol concentration after i.p. injection (n=814) between 55-65 days of age. Over 4000 polymorphic SNPs were used for genotype analysis. Three different methods of QTL mapping were employed: R/qtl, QTL Cartographer, and WebQTL. No sex-specific loci were identified.
  
  Lore1 at 54 cM on mouse Chromosome 1 was replicated, however there is evidence for a second linked locus more distal between 103 Mb - 173 Mb (LOD=2.8). This new locus isdesignated Lore9 (loss of righting induced by ethanol 9). Lore9 appears to have a stronger effect in females compared to males.
  
  A suggestive locus on mouse Chromosome 3 from a previous study was replicated in the present study at approximately 62 cM or133 Mb - 151.7 Mb (LOD=3.28). This locus is named Lore10 (loss of righting induced by ethanol 10) and maps near D3Mit127 (70.3 cM) and D3Mit86 (76.2 cM). Lore10 appears to have a stronger effect in males compared to females.
  
  Lore3 at 59 cM on mouse Chromosome 8 was replicated in this study and the QTL interval was narrowed to 102 Mb - 128.3 Mb using SNP analysis. Slc6a2 (formerly NET; 45 cM) is a strong candidate gene for Lore3 as exons 4 and 11 are polymorphic between parental strains LS and SS.
  
  Haplotype analysis excluded Slc6a4 (42 cM) as a potential candidate gene for Lore4 (49 cM) on mouse Chromosome 11.
  
  Linkage to loss of righting reflex mapped to 71 Mb - 97.7 Mb on mouse Chromosome 14 in the current study (LOD=2.77). This locus is designated Lore11 (loss of righting induced by ethanol 11). Lore11 is associated with DNA markers D14Mit228 (46 cM) and D14Mit97 (58 cM).
  
  Lore6 on mouse Chromosome 18 was replicated in this study and the QTL interval was narrowed to 77 Mb - 89.2 Mb using SNP analysis.