Prospects for whole genome linkage disequilibrium mapping in thoroughbreds

被引：15

作者：

Tozaki, T

Hirota, K

Hasegawa, T

Tomita, M

Kurosawa, M

机构：

[1] Dept Mol Genet, Lab Racing Chem, Utsunomiya, Tochigi 320051, Japan

[2] Showa Univ, Sch Pharmaceut Sci, Dept Physiol Chem, Shinagawa, Tokyo, Japan

[3] Japan Racing Assoc, Equine Res Inst, Utsunomiya, Tochigi, Japan

来源：

GENE | 2005年 / 346卷

关键词：

LD; horse; Microsatellites; D ' coefficient;

D O I：

10.1016/j.gene.2004.10.011

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Linkage disequilibrium (LD) mapping is often used in searches for genes governing economically significant traits and diseases. The D' coefficient is a commonly used measure of the extent of LD between all possible pairs of alleles at two markers. This study aimed to test the utility of the D' coefficient for LD mapping of a trait in a thoroughbred population. Microsatellite genotype data and grey coat colour as a trait model in a thoroughbred population were used to assess the extent of LD. We demonstrated that LD mapping was a reasonable approach for initial genome-wide scans in a thoroughbred population. Significant LD was demonstrated at approximately 7 cM, implying that roughly 430 appropriately spaced microsatellites were needed for systematic whole-genome LD mapping in this model. LD mapping methods using D' in a thoroughbred population were useful for identifying the chromosomal regions for diseases and economic trait loci (ETL). It was suggested that a thoroughbred population represented a population particularly suitable for LD mapping. (c) 2004 Elsevier B.V. All rights reserved.

引用

页码：127 / 132

页数：6

共 29 条

[1] Mutations of MYO6 are associated with recessive deafness, DFNB37 [J].

Ahmed, ZM ;

Morell, RJ ;

Riazuddin, S ;

Gropman, A ;

Shaukat, S ;

Ahmad, MM ;

Mohiddin, SA ;

Fananapazir, L ;

Caruso, RC ;

Husnain, T ;

Khan, SN ;

Riazuddin, S ;

Griffith, AJ ;

Friedman, TB ;

Wilcox, ER .

AMERICAN JOURNAL OF HUMAN GENETICS, 2003, 72 (05) :1315-1322

[2] ON THE LOD SCORE METHOD IN LINKAGE ANALYSIS [J].

CHOTAI, J .

ANNALS OF HUMAN GENETICS, 1984, 48 (OCT) :359-378

[3] The first-generation whole-genome radiation hybrid map in the horse identifies conserved segments in human and mouse genomes [J].

Chowdhary, BP ;

Raudsepp, T ;

Kata, SR ;

Goh, G ;

Millon, LV ;

Allan, V ;

Piumi, F ;

Guérin, G ;

Swinburne, J ;

Binns, M ;

Lear, TL ;

Mickelson, J ;

Murray, J ;

Antczak, DF ;

Womack, JE ;

Skow, LC .

GENOME RESEARCH, 2003, 13 (04) :742-751

[4]

COTTINGHAM RW, 1993, AM J HUM GENET, V53, P252

[5] Microsatellite diversity, pedigree relatedness and the contributions of founder lineages to thoroughbred horses [J].

Cunningham, EP ;

Dooley, JJ ;

Splan, RK ;

Bradley, DG .

ANIMAL GENETICS, 2001, 32 (06) :360-364

[6] Linkage disequilibrium mapping in isolated populations: The example of Finland revisited [J].

De La Chapelle, A ;

Wright, FA .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (21) :12416-12423

[7] Significant evidence for linkage disequilibrium over a 5-cM region among Afrikaners [J].

Gordon, D ;

Simonic, I ;

Ott, J .

GENOMICS, 2000, 66 (01) :87-92

[8] The second generation of the International Equine Gene Mapping Workshop half-sibling linkage map [J].

Guérin, G ;

Bailey, E ;

Bernoco, D ;

Anderson, I ;

Antczak, DF ;

Bell, K ;

Biros, I ;

Bjornstad, G ;

Bowling, AT ;

Brandon, R ;

Caetano, AR ;

Cholewinski, G ;

Colling, D ;

Eggleston, M ;

Ellis, N ;

Flynn, J ;

Gralak, B ;

Hasegawa, T ;

Ketchum, M ;

Lindgren, G ;

Lyons, LA ;

Millon, LV ;

Mariat, D ;

Murray, J ;

Neau, A ;

Roed, K ;

Sandberg, K ;

Skow, LC ;

Tammen, I ;

Tozaki, T ;

Van Dyk, E ;

Weiss, B ;

Young, A ;

Ziegle, J .

ANIMAL GENETICS, 2003, 34 (03) :161-168

[9] Gene-based SNP discovery as part of the Japanese Millennium Genome Project: identification of 190562 genetic variations in the human genome [J].

Haga, H ;

Yamada, R ;

Ohnishi, Y ;

Nakamura, Y ;

Tanaka, T .

JOURNAL OF HUMAN GENETICS, 2002, 47 (11) :605-610

[10] Genetic mapping of the (G)-locus, responsible for the coat color phenotype "progressive greying with age" in horses (Equus caballus) [J].

Henner, J ;

Poncet, PA ;

Guérin, G ;

Hagger, C ;

Stranzinger, G ;

Rieder, S .

MAMMALIAN GENOME, 2002, 13 (09) :535-537

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