Unexpected complexity in the haplotypes of commonly used inbred strains of laboratory mice

被引：85

作者：

Yalcin, B ^{[1
]}

Fullerton, J ^{[1
]}

Miller, S ^{[1
]}

Keays, DA ^{[1
]}

Brady, S ^{[1
]}

Bhomra, A ^{[1
]}

Jefferson, A ^{[1
]}

Volpi, E ^{[1
]}

Copley, RR ^{[1
]}

Flint, J ^{[1
]}

Mott, R ^{[1
]}

机构：

[1] Univ Oxford, Wellcome Trust Ctr Human Genet, Oxford OX3 7BN, England

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2004年 / 101卷 / 26期

关键词：

D O I：

10.1073/pnas.0401189101

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Investigation of sequence variation in common inbred mouse strains has revealed a segmented pattern in which regions of high and low variant density are intermixed. Furthermore, it has been suggested that allelic strain distribution patterns also occur in well defined blocks and consequently could be used to map quantitative trait loci (QTL) in comparisons between inbred strains. We report a detailed analysis of polymorphism distribution in multiple inbred mouse strains over a 4.8-megabase region containing a QTL influencing anxiety. Our analysis indicates that it is only partly true that the genomes of inbred strains exist as a patchwork of segments of sequence identity and difference. We show that the definition of haplotype blocks is not robust and that methods for QTL mapping may fail if they assume a simple block-like structure.

引用

页码：9734 / 9739

页数：6

共 23 条

[1] BASIC LOCAL ALIGNMENT SEARCH TOOL [J].

ALTSCHUL, SF ;

GISH, W ;

MILLER, W ;

MYERS, EW ;

LIPMAN, DJ .

JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) :403-410

[2] Genealogies of mouse inbred strains [J].

Beck, JA ;

Lloyd, S ;

Hafezparast, M ;

Lennon-Pierce, M ;

Eppig, JT ;

Festing, MFW ;

Fisher, EMC .

NATURE GENETICS, 2000, 24 (01) :23-+

[3] Genomic studies of gene expression: regulation of the Wilson disease gene [J].

Bochukova, EG ;

Jefferson, A ;

Francis, MJ ;

Monaco, AP .

GENOMICS, 2003, 81 (06) :531-542

[4] Using haplotype blocks to map human complex trait loci [J].

Cardon, LR ;

Abecasis, GR .

TRENDS IN GENETICS, 2003, 19 (03) :135-140

[5] A simple method to calculate resolving power and confidence interval of QTL map location [J].

Darvasi, A ;

Soller, M .

BEHAVIOR GENETICS, 1997, 27 (02) :125-132

[6] Base-calling of automated sequencer traces using phred.: I.: Accuracy assessment [J].

Ewing, B ;

Hillier, L ;

Wendl, MC ;

Green, P .

GENOME RESEARCH, 1998, 8 (03) :175-185

[7] The relationship between chromosome structure and function at a human telomeric region [J].

Flint, J ;

Thomas, K ;

Micklem, G ;

Raynham, H ;

Clark, K ;

Doggett, NA ;

King, A ;

Higgs, DR .

NATURE GENETICS, 1997, 15 (03) :252-257

[8] Finding the molecular basis of quantitative traits: Successes and pitfalls [J].

Flint, J ;

Mott, R .

NATURE REVIEWS GENETICS, 2001, 2 (06) :437-445

[9] The structure of haplotype blocks in the human genome [J].

Gabriel, SB ;

Schaffner, SF ;

Nguyen, H ;

Moore, JM ;

Roy, J ;

Blumenstiel, B ;

Higgins, J ;

DeFelice, M ;

Lochner, A ;

Faggart, M ;

Liu-Cordero, SN ;

Rotimi, C ;

Adeyemo, A ;

Cooper, R ;

Ward, R ;

Lander, ES ;

Daly, MJ ;

Altshuler, D .

SCIENCE, 2002, 296 (5576) :2225-2229

[10] A physical map of the mouse genome [J].

Gregory, SG ;

Sekhon, M ;

Schein, J ;

Zhao, SY ;

Osoegawa, K ;

Scott, CE ;

Evans, RS ;

Burridge, PW ;

Cox, TV ;

Fox, CA ;

Hutton, RD ;

Mullenger, IR ;

Phillips, KJ ;

Smith, J ;

Stalker, J ;

Threadgold, GJ ;

Birney, E ;

Wylie, K ;

Chinwalla, A ;

Wallis, J ;

Hillier, L ;

Carter, J ;

Gaige, T ;

Jaeger, S ;

Kremitzki, C ;

Layman, D ;

Maas, J ;

McGrane, R ;

Mead, K ;

Walker, R ;

Jones, S ;

Smith, M ;

Asano, J ;

Bosdet, I ;

Chan, S ;

Chittaranjan, S ;

Chiu, R ;

Fjell, C ;

Fuhrmann, D ;

Girn, N ;

Gray, C ;

Guin, R ;

Hsiao, L ;

Krzywinski, M ;

Kutsche, R ;

Lee, SS ;

Mathewson, C ;

McLeavy, C ;

Messervier, S ;

Ness, S .

NATURE, 2002, 418 (6899) :743-U3

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