Genomewide SNP screen to detect quantitative trait loci for alcohol preference in the high alcohol preferring and low alcohol preferring mice

Paula Bice, William Valdar, Lili Zhang, Lixiang Liu, Dongbing Lai, Nicholas Grahame, Jonathan Flint, Ting Kai Li, Lawrence Lumeng, Tatiana Foroud

Research output: Contribution to journalArticle

15 Citations (Scopus)

Abstract

Background: The high and low alcohol preferring (HAP1 and LAP1) mouse lines were selectively bred for differences in alcohol intake. The HAP1 and LAP1 mice are essentially noninbred lines that originated from the outbred colony of HS/Ibg mice, a heterogeneous stock developed from intercrossing 8 inbred strains of mice. Methods: A total of 867 informative SNPs were genotyped in 989 HAP1 × LAP1 F2, 68 F1s, 14 parents (6 LAP1, 8 HAP1), as well as the 8 inbred strains of mice crossed to generate the HS/Ibg colony. Multipoint genome wide analyses were performed to simultaneously detect linked QTLs and also fine map these regions using the ancestral haplotypes. Results: QTL analysis detected significant evidence of association on 4 chromosomes: 1, 3, 5, and 9. The region on chromosome 9 was previously found linked in a subset of these F2 animals using a whole genome microsatellite screen. Conclusions: We have detected strong evidence of association to multiple chromosomal regions in the mouse. Several of these regions include candidate genes previously associated with alcohol dependence in humans or other animal models.

Original languageEnglish (US)
Pages (from-to)531-537
Number of pages7
JournalAlcoholism: Clinical and Experimental Research
Volume33
Issue number3
DOIs
StatePublished - Mar 1 2009

Fingerprint

Quantitative Trait Loci
Single Nucleotide Polymorphism
Genes
Alcohols
Chromosomes
Inbred Strains Mice
Animals
Genome
Microsatellite Repeats
Chromosomes, Human, Pair 9
Chromosomes, Human, Pair 3
Chromosomes, Human, Pair 1
Haplotypes
Alcoholism
Animal Models

Keywords

  • Alcohol Consumption
  • Association
  • Quantitative Trait Locus

ASJC Scopus subject areas

  • Medicine (miscellaneous)
  • Psychiatry and Mental health
  • Toxicology

Cite this

Genomewide SNP screen to detect quantitative trait loci for alcohol preference in the high alcohol preferring and low alcohol preferring mice. / Bice, Paula; Valdar, William; Zhang, Lili; Liu, Lixiang; Lai, Dongbing; Grahame, Nicholas; Flint, Jonathan; Li, Ting Kai; Lumeng, Lawrence; Foroud, Tatiana.

In: Alcoholism: Clinical and Experimental Research, Vol. 33, No. 3, 01.03.2009, p. 531-537.

Research output: Contribution to journalArticle

Bice, Paula ; Valdar, William ; Zhang, Lili ; Liu, Lixiang ; Lai, Dongbing ; Grahame, Nicholas ; Flint, Jonathan ; Li, Ting Kai ; Lumeng, Lawrence ; Foroud, Tatiana. / Genomewide SNP screen to detect quantitative trait loci for alcohol preference in the high alcohol preferring and low alcohol preferring mice. In: Alcoholism: Clinical and Experimental Research. 2009 ; Vol. 33, No. 3. pp. 531-537.
@article{24e7d11ee1004c1789f919e73c6387f6,
title = "Genomewide SNP screen to detect quantitative trait loci for alcohol preference in the high alcohol preferring and low alcohol preferring mice",
abstract = "Background: The high and low alcohol preferring (HAP1 and LAP1) mouse lines were selectively bred for differences in alcohol intake. The HAP1 and LAP1 mice are essentially noninbred lines that originated from the outbred colony of HS/Ibg mice, a heterogeneous stock developed from intercrossing 8 inbred strains of mice. Methods: A total of 867 informative SNPs were genotyped in 989 HAP1 × LAP1 F2, 68 F1s, 14 parents (6 LAP1, 8 HAP1), as well as the 8 inbred strains of mice crossed to generate the HS/Ibg colony. Multipoint genome wide analyses were performed to simultaneously detect linked QTLs and also fine map these regions using the ancestral haplotypes. Results: QTL analysis detected significant evidence of association on 4 chromosomes: 1, 3, 5, and 9. The region on chromosome 9 was previously found linked in a subset of these F2 animals using a whole genome microsatellite screen. Conclusions: We have detected strong evidence of association to multiple chromosomal regions in the mouse. Several of these regions include candidate genes previously associated with alcohol dependence in humans or other animal models.",
keywords = "Alcohol Consumption, Association, Quantitative Trait Locus",
author = "Paula Bice and William Valdar and Lili Zhang and Lixiang Liu and Dongbing Lai and Nicholas Grahame and Jonathan Flint and Li, {Ting Kai} and Lawrence Lumeng and Tatiana Foroud",
year = "2009",
month = "3",
day = "1",
doi = "10.1111/j.1530-0277.2008.00866.x",
language = "English (US)",
volume = "33",
pages = "531--537",
journal = "Alcoholism: Clinical and Experimental Research",
issn = "0145-6008",
publisher = "Wiley-Blackwell",
number = "3",

}

TY - JOUR

T1 - Genomewide SNP screen to detect quantitative trait loci for alcohol preference in the high alcohol preferring and low alcohol preferring mice

AU - Bice, Paula

AU - Valdar, William

AU - Zhang, Lili

AU - Liu, Lixiang

AU - Lai, Dongbing

AU - Grahame, Nicholas

AU - Flint, Jonathan

AU - Li, Ting Kai

AU - Lumeng, Lawrence

AU - Foroud, Tatiana

PY - 2009/3/1

Y1 - 2009/3/1

N2 - Background: The high and low alcohol preferring (HAP1 and LAP1) mouse lines were selectively bred for differences in alcohol intake. The HAP1 and LAP1 mice are essentially noninbred lines that originated from the outbred colony of HS/Ibg mice, a heterogeneous stock developed from intercrossing 8 inbred strains of mice. Methods: A total of 867 informative SNPs were genotyped in 989 HAP1 × LAP1 F2, 68 F1s, 14 parents (6 LAP1, 8 HAP1), as well as the 8 inbred strains of mice crossed to generate the HS/Ibg colony. Multipoint genome wide analyses were performed to simultaneously detect linked QTLs and also fine map these regions using the ancestral haplotypes. Results: QTL analysis detected significant evidence of association on 4 chromosomes: 1, 3, 5, and 9. The region on chromosome 9 was previously found linked in a subset of these F2 animals using a whole genome microsatellite screen. Conclusions: We have detected strong evidence of association to multiple chromosomal regions in the mouse. Several of these regions include candidate genes previously associated with alcohol dependence in humans or other animal models.

AB - Background: The high and low alcohol preferring (HAP1 and LAP1) mouse lines were selectively bred for differences in alcohol intake. The HAP1 and LAP1 mice are essentially noninbred lines that originated from the outbred colony of HS/Ibg mice, a heterogeneous stock developed from intercrossing 8 inbred strains of mice. Methods: A total of 867 informative SNPs were genotyped in 989 HAP1 × LAP1 F2, 68 F1s, 14 parents (6 LAP1, 8 HAP1), as well as the 8 inbred strains of mice crossed to generate the HS/Ibg colony. Multipoint genome wide analyses were performed to simultaneously detect linked QTLs and also fine map these regions using the ancestral haplotypes. Results: QTL analysis detected significant evidence of association on 4 chromosomes: 1, 3, 5, and 9. The region on chromosome 9 was previously found linked in a subset of these F2 animals using a whole genome microsatellite screen. Conclusions: We have detected strong evidence of association to multiple chromosomal regions in the mouse. Several of these regions include candidate genes previously associated with alcohol dependence in humans or other animal models.

KW - Alcohol Consumption

KW - Association

KW - Quantitative Trait Locus

UR - http://www.scopus.com/inward/record.url?scp=60649109914&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=60649109914&partnerID=8YFLogxK

U2 - 10.1111/j.1530-0277.2008.00866.x

DO - 10.1111/j.1530-0277.2008.00866.x

M3 - Article

C2 - 19120064

AN - SCOPUS:60649109914

VL - 33

SP - 531

EP - 537

JO - Alcoholism: Clinical and Experimental Research

JF - Alcoholism: Clinical and Experimental Research

SN - 0145-6008

IS - 3

ER -