Integration of the rat recombination and EST maps in the rat genomic sequence and comparative mapping analysis with the mouse genome

被引：18

作者：

Wilder, SP

Bihoreau, MT

Argoud, K

Watanabe, TK

Lathrop, M

Gauguier, D ^{[1
]}

机构：

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

[2] Otsuka GEN Res Inst, Tokushima 7710192, Japan

[3] Ctr Natl Genotypage, F-91006 Evry, France

来源：

GENOME RESEARCH | 2004年 / 14卷 / 04期

关键词：

D O I：

10.1101/gr.2001604

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Inbred strains of the laboratory rat are widely used for identifying genetic regions involved in the control of complex quantitative phenotypes of biomedical importance. The draft genomic sequence of the rat now provides essential information for annotating rat quantitative trait locus (QTL) maps. Following the survey of unique rat microsatellite (11,585 including 1648 new markers) and EST (10,067) markers currently available, we have incorporated a selection of 7952 rat EST sequences in an improved version of the integrated linkage-radiation hybrid map of the rat containing 2058 microsatellite markers which provided over 10,000 potential anchor points between rat QTL and the genomic sequence of the rat. A total of 996 genetic positions were resolved (avg. spacing 1.77 cM) in a single large intercross and anchored in the rat genomic sequence (avg. spacing 1.62 Mb). Comparative genome maps between rat and mouse were constructed by successful computational alignment of 6108 mapped rat ESTs in the mouse genome. The integration of rat linkage maps in the draft genomic Sequence of the rat and that of other species represents an essential step for translating rat QTL intervals into human chromosomal targets.

引用

页码：758 / 765

页数：8

共 32 条

[1] Identification of Cd36 (Fat) as an insulin-resistance gene causing defective fatty acid and glucose metabolism in hypertensive rats [J].

Aitman, TJ ;

Glazier, AM ;

Wallace, CA ;

Cooper, LD ;

Norsworthy, PJ ;

Wahid, FN ;

Al-Majali, KM ;

Trembling, PM ;

Mann, CJ ;

Shoulders, CC ;

Graf, D ;

St Lezin, E ;

Kurtz, TW ;

Kren, V ;

Pravenec, M ;

Ibrahimi, A ;

Abumrad, NA ;

Stanton, LW ;

Scott, J .

NATURE GENETICS, 1999, 21 (01) :76-83

[2] 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

[3] A high-resolution consensus linkage map of the rat, integrating radiation hybrid and genetic maps [J].

Bihoreau, MT ;

Sebag-Montefiore, L ;

Godfrey, RF ;

Wallis, RH ;

Brown, JH ;

Danoy, PA ;

Collins, SC ;

Rouard, M ;

Kaisaki, PJ ;

Lathrop, M ;

Gauguier, D .

GENOMICS, 2001, 75 (1-3) :57-69

[4] A linkage map of the rat genome derived from three F-2 crosses [J].

Bihoreau, MT ;

Gauguier, D ;

Kato, N ;

Hyne, G ;

Lindpaintner, K ;

Rapp, JP ;

James, MR ;

Lathrop, GM .

GENOME RESEARCH, 1997, 7 (05) :434-440

[5] Ensembl 2002: accommodating comparative genomics [J].

Clamp, M ;

Andrews, D ;

Barker, D ;

Bevan, P ;

Cameron, G ;

Chen, Y ;

Clark, L ;

Cox, T ;

Cuff, J ;

Curwen, V ;

Down, T ;

Durbin, R ;

Eyras, E ;

Gilbert, J ;

Hammond, M ;

Hubbard, T ;

Kasprzyk, A ;

Keefe, D ;

Lehvaslaiho, H ;

Iyer, V ;

Melsopp, C ;

Mongin, E ;

Pettett, R ;

Potter, S ;

Rust, A ;

Schmidt, E ;

Searle, S ;

Slater, G ;

Smith, J ;

Spooner, W ;

Stabenau, A ;

Stalker, J ;

Stupka, E ;

Ureta-Vidal, A ;

Vastrik, I ;

Birney, E .

NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :38-42

[6] Quantitative estimates of sequence divergence for comparative analyses of mammalian genomes [J].

Cooper, GM ;

Brudno, M ;

Green, ED ;

Batzoglou, S ;

Sidow, A .

GENOME RESEARCH, 2003, 13 (05) :813-820

[7] Insulin-degrading enzyme identified as a candidate diabetes susceptibility gene in GK rats [J].

Fakhrai-Rad, H ;

Nikoshkov, A ;

Kamel, A ;

Fernström, M ;

Zierath, JR ;

Norgren, S ;

Luthman, H ;

Galli, J .

HUMAN MOLECULAR GENETICS, 2000, 9 (14) :2149-2158

[8] Cross-species sequence comparisons: A review of methods and available resources [J].

Frazer, KA ;

Elnitski, L ;

Church, DM ;

Dubchak, I ;

Hardison, RC .

GENOME RESEARCH, 2003, 13 (01) :1-12

[9] A gene map of the rat derived from linkage analysis and related regions in the mouse and human genomes [J].

Gauguier, D ;

Kaisaki, PJ ;

Rouard, M ;

Wallis, RH ;

Browne, J ;

Rapp, JP ;

Bihoreau, MT .

MAMMALIAN GENOME, 1999, 10 (07) :675-686

[10] Chromosomal mapping of genetic loci associated with non-insulin dependent diabetes in the GK rat [J].

Gauguier, D ;

Froguel, P ;

Parent, V ;

Bernard, C ;

Bihoreau, MT ;

Portha, B ;

James, MR ;

Penicaud, L ;

Lathrop, M ;

Ktorza, A .

NATURE GENETICS, 1996, 12 (01) :38-43

← 1 2 3 4 →