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Home / Equine Research Bank / Genome Res / A primary male autosomal linkage map of the horse genome.
Genome research1998; 8(9); 951-966; doi: 10.1101/gr.8.9.951

A primary male autosomal linkage map of the horse genome.

Abstract: A primary male autosomal linkage map of the domestic horse (Equus caballus) has been developed by segregation analysis of 140 genetic markers within eight half-sib families. The family material comprised four Standardbred trotters and four Icelandic horses, with a total of 263 offspring. The marker set included 121 microsatellite markers, eight protein polymorphisms, five RFLPs, three blood group polymorphisms, two PCR-RFLPs, and one single strand conformation polymorphism (SSCP). One hundred markers were arranged into 25 linkage groups, 22 of which could be assigned physically to 18 different chromosomes (ECA1, ECA2, ECA3, ECA4, ECA5, ECA6, ECA7, ECA9, ECA10, ECA11, ECA13, ECA15, ECA16, ECA18, ECA19, ECA21, ECA22, and ECA30). The average distance between linked markers was 12.6 cM and the longest linkage group measured 103 cM. The total map distance contained within linkage groups was 679 cM. If the distances covered outside the ends of linkage groups and by unlinked markers were included, it was estimated that the marker set covered at least 1500 cM, that is, at least 50% of the genome. A comparison of the relationship between genetic and physical distances in anchored linkage groups gave ratios of 0.5-0.8 cM per Mb of DNA. This would suggest that the total male recombinational distance in the horse is 2000 cM; this value is lower than that suggested by chiasma counts. The present map should provide an important framework for future genome mapping in the horse.
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Publication Date: 1998-09-29 PubMed ID: 9750194PubMed Central: PMC310772DOI: 10.1101/gr.8.9.951Google Scholar: Lookup
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Summary

This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.

The research paper discusses the development of a primary male autosomal linkage map of the domestic horse genome, which was achieved by analysing 140 genetic markers across eight horse families. The study provides a framework for future genome mapping in horses.

Development of the Male Autosomal Linkage Map

  • The study established a primary male autosomal linkage map of the domestic horse (Equus caballus) by conducting segregation analysis of 140 genetic markers within eight half-sib families.
  • The eight families comprised of four Standardbred trotters and four Icelandic horses, with a total of 263 offspring. These diverse breeds provided a comprehensive pool for the study.
  • The marker set included 121 microsatellite markers, eight protein polymorphisms, five Restriction Fragment Length Polymorphisms (RFLPs), three blood group polymorphisms, two Polymerase Chain Reaction-Restriction Fragment Length Polymorphisms (PCR-RFLPs), and one single strand conformation polymorphism (SSCP).
  • The study successfully arranged one hundred markers into 25 linkage groups with 22 of these groups physically assigned to 18 different chromosomes (such as ECA1, ECA2, ECA3 and so on up to ECA30).

Results and Assessments

  • The average distance between linked markers was measured at 12.6 centiMorgans (cM) and the longest linkage group measured 103 cM.
  • The total map distance contained within linkage groups was 679 cM. If the distances covered outside the ends of linkage groups and by unlinked markers were included, it was estimated that the marker set covered at least 1500 cM, which is at least 50% of the horse genome.

    • <liComparing the relationship between genetic and physical distances in anchored linkage groups gave ratios of 0.5-0.8 cM per mega base (Mb) of DNA.

  • This suggests that the total male recombinational distance in the horse is 2000 cM; a value lower than that suggested by chiasma counts.

Impact and Future Directions

  • The research provides a solid foundation for future studies focused on genome mapping in horses. The insight might improve understanding of horse genetics and stimulate further advancements.

Cite This Article

APA
Lindgren G, Sandberg K, Persson H, Marklund S, Breen M, Sandgren B, Carlstén J, Ellegren H. (1998). A primary male autosomal linkage map of the horse genome. Genome Res, 8(9), 951-966. https://doi.org/10.1101/gr.8.9.951

Publication

Genome research
ISSN: 1088-9051
NlmUniqueID: 9518021
Country: United States
Language: English
Volume: 8
Issue: 9
Pages: 951-966

Researcher Affiliations

Lindgren, G
  • Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, S-751 24 Uppsala, Sweden. Gabriella.Lindgren@bmc.uu.se
Sandberg, K
    Persson, H
      Marklund, S
        Breen, M
          Sandgren, B
            Carlstén, J
              Ellegren, H

                MeSH Terms

                • Animals
                • Blood Group Antigens
                • Chromosome Mapping
                • Genetic Linkage
                • Genetic Markers
                • Genome
                • Horses / blood
                • Horses / genetics
                • Male
                • Microsatellite Repeats
                • Polymerase Chain Reaction / methods
                • Polymorphism, Genetic
                • Polymorphism, Restriction Fragment Length
                • Polymorphism, Single-Stranded Conformational
                • Proteins / genetics

                References

                This article includes 79 references
                1. Andersson L, Sandberg K. A linkage group composed of three coat colour genes and three serum protein loci in horses.. J Hered 1982;73:91–94.
                  pubmed: 7096983
                2. Andersson L, Haley CS, Ellegren H, Knott SA, Johansson M, Andersson K, Andersson-Eklund L, Edfors-Lilja I, Fredholm M, Hansson I, Håkansson J, Lundström K. Genetic mapping of quantitative trait loci for growth and fatness in pigs.. Science 1994;263:1771–1774.
                  pubmed: 8134840
                3. Ansari HA, Hediger R, Fries R, Stranzinger G. Chromosomal localization of the major histocompatibility complex of the horse (ELA) by in situ hybridization.. Immunogenetics 1988;28:362–364.
                  pubmed: 3169882
                4. Bailey E, Reid RC, Skow LC, Mathiason K, Lear TL, McGuire TC. Linkage of the gene for equine combined immunodeficiency disease to microsatellite markers HTG8 and HTG4; synteny and FISH mapping to ECA9.. Anim Genet 1997;28:268–273.
                  pubmed: 9345723
                5. Bailey E, Stormont C, Suzuki Y, Trommershausen Smith A. Linkage of loci controlling alloantigens on red blood cells and lymphocytes in the horse.. Science 1979;204:1317–1319.
                  pubmed: 451540
                6. Barendse W, Vaiman D, Kemp SJ, Sugimoto Y, Armitage SM, Williams JL, Sun HS, Eggen A, Agaba M, Aleysin SA. A medium-density genetic linkage map of the bovine genome.. Mamm Genome 1997;8:21–28.
                  pubmed: 9021143
                7. Barton DE, Kwon BS, Francke U. Human tyrosinase gene, mapped to chromosome 11 (q14-q21), defines second region of homology with mouse chromosome 7.. Genomics 1988;3:17–24.
                  pubmed: 3146546
                8. Beattie CW. Livestock genome maps.. Trends Genet 1994;10:334–338.
                  pubmed: 7974748
                9. Binns MM, Holmes NG, Holliman A, Scott AM. The identification of polymorphic microsatellite loci in the horse and their use in thoroughbred parentage testing.. Br Vet J 1995;151:9–15.
                  pubmed: 7735875
                10. Bowling AT, Clark RS. Blood group and protein polymorphism gene frequencies for seven breeds of horses in the United States.. Anim Blood Groups Biochem Genet 1985;16:93–108.
                  pubmed: 4037429
                11. Bowling AT, Scott AM, Flint J, Clegg JB. Novel alpha haemoglobin haplotypes in horses.. Anim Genet 1988;19:87–101.
                  pubmed: 3415045
                12. Bowling AT, Breen M, Chowdhary BP, Hirota K, Lear T, Millon LV, Leon FAP, Rausepp T, Stranzinger G. International System for Cytogenetics Nomenclature of the domestic Horse.. Chromosome Res 1997a;5:433–443.
                  pubmed: 9421259
                13. Bowling AT, Millon LV, Dileanis S. Physical mapping of genetic markers to chromosome 30 using a trisomic horse and evidence for maternal origin of the extra chromosome.. Chromosome Res 1997b;5:429–431.
                  pubmed: 9364945
                14. Breen M, Downs P, Irvin Z, Bell K. Six equine dinucleotide repeats: Microsatellites MPZ002, 3, 4, 5, 6 and 7.. Anim Genet 1994;25:124.
                  pubmed: 8010533
                15. Breen M, Lindgren G, Binns MM, Norman J, Irvin Z, Bell K, Sandberg K, Ellegren H. Genetical and physical assignments of equine microsatellites-first integration of anchored markers in horse genome mapping.. Mamm Genome 1997;8:267–273.
                  pubmed: 9096108
                16. Burt A, Bell G. Mammalian chiasma frequencies as a test of two theories of recombination.. Nature 1987;326:803–805.
                  pubmed: 3574451
                17. Chapman HM, Bruere A. Chromosome morphology during meiosis of normal and Robertsonian translocation-carrying rams (Ovis aries). Can J Genet Cytol 1977;19:93–102.
                  pubmed: 861831
                18. Charlier C, Coppieters W, Farnir F, Grobet L, Leroy PL, Michaux C, Mni M, Schwers A, Vanmanshoven P, Hanset R, Georges M. The mh gene causing double-muscling in cattle maps to bovine chromosome 2.. Mamm Genome 1995;6:788–792.
                  pubmed: 8597635
                19. Coogle L, Bailey E, Reid R, Russ M. Equine dinucleotide repeat polymorphisms at loci LEX002, -003, -004, -005, -007, -008, -009, -010, -011, -013 and -014.. Anim Genet 1996a;27:126–127.
                  pubmed: 8856912
                20. Coogle L, Reid R, Bailey E. Equine dinucleotide repeat loci LEX015-024.. Anim Genet 1996b;27:217–218.
                  pubmed: 8759136
                21. . Equine dinucleotide repeat loci from LEX025 to LEX033.. Anim Genet 1996c;27:289–290.
                  pubmed: 8856936
                22. . Equine dinucleotide repeat loci LEX034-LEX048.. Anim Genet 1997;28:308–322.
                  pubmed: 9345731
                23. Crawford AM, Dodds KG, Ede AJ, Pierson CA, Montgomery GW, Garmonsway HG, Beattie AE, Davies K, Maddox JF, Kappes SW. An autosomal genetic linkage map of the sheep genome.. Genetics 1995;140:703–724.
                  pmc: PMC1206646pubmed: 7498748
                24. Davisson MT, Roderick TH. Linkage map.. Genetic variants and strains of the laboratory mouse 1989. pp. 416–427.
                25. Dawson DM, Jaeger S. Heterogeneity of phosphoglucomutase.. Biochem Genet 1970;4:1–9.
                  pubmed: 5444102
                26. Ellegren H, Johansson M, Sandberg K, Andersson L. Cloning of highly polymorphic microsatellites in the horse.. Anim Genet 1992;23:133–142.
                  pubmed: 1443772
                27. Ellegren H, Chowdhary BP, Johansson M, Marklund L, Fredholm M, Gustavsson I, Andersson L. A primary linkage map of the porcine genome reveals a low rate of genetic recombination.. Genetics 1994;137:1089–1100.
                  pmc: PMC1206056pubmed: 7982563
                28. Ewen KR, Matthews ME. VIAS-H17 and VIAS-H34: Two new polymorphic equine microsatellite loci.. Anim Genet 1994a;25:63.
                  pubmed: 8161035
                29. . VIAS-H39, an equine tetranucleotide microsatellite repeat polymorphism.. Anim Genet 1994b;25:433.
                  pubmed: 7695132
                30. Fraser DG, Bailey E. Demonstration of three DRB loci in a domestic horse family.. Immunogenetics 1996;44:441–445.
                  pubmed: 8824155
                31. Fridolfsson A-K, Hori T, Winterø A-K, Fredholm M, Yerle M, Robic A, Andersson L, Ellegren H. Expansion of the pig comparative map by expressed sequence tags (EST) mapping.. Mamm Genome 1997;8:907–912.
                  pubmed: 9383283
                32. Fukushima H, de Wet JR, O’Brien SJ. Molecular cloning of a cDNA for human α-L-fucosidase.. Proc Natl Acad Sci 1985;82:1262–1265.
                  pmc: PMC397235pubmed: 2983333
                33. Gahne B. Studies on the inheritance of electrophoretic forms of transferrins, albumins, prealbumins and plasma esterases of horses.. Genetics 1966;53:681–694.
                  pmc: PMC1211049pubmed: 5960258
                34. Georges M, Nielsen D, Mackinnon M, Mishra A, Okimoto R, Pasquino AT, Sargeant LS, Sorensen A, Steele MR, Zhao X, Womack JE, Hoeschele I. Mapping quantitative trait loci controlling milk production in dairy cattle by exploiting progeny testing.. Genetics 1995;139:907–920.
                  pmc: PMC1206390pubmed: 7713441
                35. Godard S, Vaiman D, Oustry A, Nocart M, Bertaud M, Guzylack S, Mériaux JC, Cribiu EP, Guérin G. Characterization, genetic and physical mapping analysis of 36 horse plasmid and cosmid-derived microsatellites.. Mamm Genome 1997;8:745–750.
                  pubmed: 9321468
                36. Godard S, Schibler L, Oustry A, Cribiu EP, Guérin G. Construction of a horse BAC library and cytogenetical assignment of 20 type I and type II markers.. Mamm Genome 1998;9:633–637.
                  pubmed: 9680383
                37. Green P, Falls KA, Crooks S. Documentation for CRI-MAP, version 2.4.. St. Louis, MO: Washington University School of Medicine; 1990.
                38. Gu F, Harbitz I, Chowdhary BP. Localization of the 6-phosphogluconate dehydrogenase (PGD) gene in horses by in situ hybridization.. Hereditas 1992;117:93–95.
                  pubmed: 1399707
                39. Gu F, Harbitz I, Chowdhary BP, Davies W, Gustavsson I. Mapping of the porcine lipoprotein lipase (LPL) gene to chromosome 14q12-q14 bands by in situ hybridisation.. Cytogenet Cell Genet 1992;59:63–64.
                  pubmed: 1733677
                40. Guérin G, Bertaud M. Characterization of two polymorphic horse microsatellites: HMS15 and HMS20.. Anim Genet 1996;27:123.
                  pubmed: 8856907
                41. Guérin G, Bertaud M, Amigues Y. Characterization of seven new horse microsatellites: HMS1, HMS2, HMS3, HMS5, HMS6, HMS7 and HMS8.. Anim Genet 1994;25:62.
                  pubmed: 8161034
                42. Harbitz I, Kristensen T, Davies W. Isolation and sequencing of porcine lipoprotein lipase cDNA and its use in multiallelic restriction fragment length polymorphism detection.. Anim Genet 1992;23:517–522.
                  pubmed: 1362860
                43. Hasler-Rapacz J, Ellegren H, Fridolfsson A-K, Kirkpatrick B, Kirk S, Andersson L, Rapacz J. Identification of a mutation in the low density lipoprotein receptor gene associated with recessive familial hypercholesterolemia in swine.. Am J Med Genet 1998;76:379–386.
                  pubmed: 9556295
                44. Irvin Z, Giffard J, Brandon R, Breen M, Bell K. Equine dinucleotide repeat polymorphisms at loci ASB21, 23, 25 and 37-43.. Anim Genet 1998;29:67.
                  pubmed: 9682459
                45. Juneja RK, Gahne B, Stratil A. Polymorphic plasma postalbumins of some domestic animals (pig PO2, horse Xk, and dog Pa proteins) identified as homologous to human plasma alpha 1B-glycoprotein.. Anim Genet 1987;18:119–124.
                  pubmed: 2444141
                46. Kappes SM, Keele JW, Stone RT, McGraw RA, Sonstegard TS, Smith TP, Lopez-Corrales NL, Beattie CW. A second-generation linkage map of the bovine genome.. Genome Res 1997;7:235–249.
                  pubmed: 9074927
                47. Lear TL, Irwin Z, Brandon R, Bell K, Mathiason K, Bailey E. Physical assignment of microsatellite markers to horse chromosomes using FISH; p. 162.. Proceedings, plant and animal genome VI 1998. San Diego, CA.
                48. Lear TL, Adams MH, McDowell KJ, Sullivan ND, Coogle L, Ferguson E Jr, Chambers TM, Bailey E. Chromosomal location of the genes for ESR, ETS2, GOT2, KIT, MX1 and PGR in the horse, Equus caballus; p. 24.. Proceedings of the 10th North American colloquium on gene mapping and cytogenetics in human and domestic species 1997. Apalachicola, FL.
                49. Lindgren G, Persson H, Ellegren H. Five equine dinucleotide microsatellite loci HTG17, HTG20, HTG21, HTG28 and HTG31.. Anim Genet 1998 (in press).
                  pubmed: 10050295
                50. Long SE. Chiasma counts and non-disjunction frequencies in a normal ram and in rams carrying the Massey I (t1) Robertsonian translocation.. J Reprod Fertil 1978;53:353–356.
                  pubmed: 690984
                51. Logue DN. Meiosis in the domestic ruminants with particular reference to Robertsonian translocations.. Ann Genet Sel Anim 1977;9:493–507.
                  pmc: PMC2764652pubmed: 22896551
                52. MacLennan DH, Duff C, Zorzato F, Fujii J, Philips M, Korneluk RG, Frodis W, Britt BA, Worton RG. Ryanodine receptor gene is a candidate for predisposition to malignant hyperthermia.. Nature 1990;343:559–561.
                  pubmed: 1967823
                53. Marklund S, Ellegren H, Eriksson S, Sandberg K, Andersson L. Parentage testing and linkage analysis in the horse using a set of highly polymorphic microsatellites.. Anim Genet 1994;25:19–23.
                  pubmed: 8161016
                54. Marklund L, Johansson Moller M, Høyheim B, Davies W, Fredholm M, Juneja RK, Mariani P, Coppieters W, Ellegren H, Andersson L. A comprehensive linkage map of the pig based on a wild pig–Large White intercross.. Anim Genet 1996a;27:255–269.
                  pubmed: 8856923
                55. Marklund L, Johansson Moller M, Sandberg K, Andersson L. A missense mutation in the gene for melanocyte-stimulating hormone receptor (MC1R) is associated with the chestnut coat color in horses.. Mamm Genome 1996b;7:895–899.
                  pubmed: 8995760
                56. Marti E, Breen M, Fischer P, Swinburne J, Binns MM. Six new cosmid derived and physically mapped equine dinucleotide repeat microsatellites.. Anim Genet 1998;29:236–238.
                  pubmed: 9720186
                57. Mellersh CS, Langston AA, Acland GM, Fleming MA, Ray K, Wiegand NA, Francisco LV, Gibbs M, Aguirre GD, Ostrander EA. A linkage map of the canine genome.. Genomics 1997;46:326–336.
                  pubmed: 9441735
                58. Montgomery GW, Lord EA, Penty JM, Dodds KG, Broad TE, Cambridge L, Sunden SLF, Stone RT, Crawford A. The Booroola fecundity (FecB) gene maps to sheep chromosome 6.. Genomics 1994;22:148–153.
                  pubmed: 7959761
                59. Morton NE. Parameters of the human genome.. Proc Natl Acad Sci 1991;88:7474–7476.
                  pmc: PMC52322pubmed: 1881886
                60. Mueckler M, Caruso C, Baldwin SA, Panico M, Blench I, Morris HR, Allard WJ, Lienhard GE, Lodish HF. Sequence and structure of a human glucose transporter.. Science 1985;229:941–945.
                  pubmed: 3839598
                61. Oakenfull EA, Buckle VJ, Clegg JB. Localization of the horse (Equus caballus) α-globin gene complex to chromosome 13 by fluorescence in situ hybridization.. Cytogenet Cell Genet 1993;62:136–138.
                  pubmed: 8428512
                62. Raudsepp T, Frönicke L, Scherthan H, Gustavsson I, Chowdhary BP. Zoo-FISH delineates conserved chromosomal segment in horse and man.. Chromosome Res 1996;4:218–225.
                  pubmed: 8793207
                63. Raudsepp T, Otte K, Rozell B, Chowdhary BP. FISH mapping of the IGF2 gene in horse and donkey—detection of homoeology with HSA11.. Mamm Genome 1997;8:569–572.
                  pubmed: 9250862
                64. Rohrer GA, Alexander LJ, Hu Z, Smith TP, Keele JW, Beattie CW. A comprehensive map of the porcine genome.. Genome Res 1996;6:371–391.
                  pubmed: 8743988
                65. Rudolph JA, Spier SJ, Byrns G, Rojas CV, Bernoco D, Hoffman EP. Periodic paralysis in Quarter horses: A sodium channel mutation disseminated by selective breeding.. Nat Genet 1992;2:144–147.
                  pubmed: 1338908
                66. Sakagami M, Tozaki T, Mashima S, Hirota K, Mukoyama H. Equine parentage testing by microsatellite locus at chromosome 1q2.1.. Anim Genet 1995;26:123–124.
                  pubmed: 7733495
                67. Sandberg K. Genetic polymorphism in carbonic anhydrase from horse erythrocytes.. Hereditas 1968;60:411–412.
                68. Sandberg K. The D blood group system of the horse.. Anim Blood Groups Biochem Genet 1973;4:193–205.
                  pubmed: 4791789
                69. Sandberg K, Andersson L. Horse (Equus caballus). Genetic maps 1992. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press; pp. 4.276–4.278.
                70. Santschi EM, Purdy AK, Valberg SJ, Vrotsos PD, Kaese H, Mickelson JR. Endothelin receptor B polymorphism associated with lethal white foal syndrome in horses.. Mamm Genome 1998;9:306–309.
                  pubmed: 9530628
                71. Scott IS, Long SE. An examination of chromosomes in the stallion (Equus caballus) during meiosis.. Cytogenet Cell Genet 1980;26:7–13.
                  pubmed: 7371434
                72. Seidel U, Bober E, Winter B, Lenz S, Lohse P, Arnold HH. The complete nucleotide sequences of cDNA clones coding for human myosin light chains 1 and 3.. Nucleic Acids Res 1987;15:4989.
                  pmc: PMC305934pubmed: 3601661
                73. Shin EK, Perryman LE, Meek K. A kinase-negative mutation of DNA-PKCS in equine SCID results in defective coding and signal joint formation.. J Immunol 1997;158:3565–3569.
                  pubmed: 9103416
                74. Shiue Y, Bickel LA, Caetano AR, Millon LV, Clark RS, Eggleston ML, Michelmore R, Bailey E, Guérin G, Godard S, Mickelson JR, Valberg SJ, Murray JD, Bowling AT. A synteny map of the horse genome comprised of 240 microsatellite and RAPD markers.. Anim Genet 1998 (in press).
                  pubmed: 10050277
                75. Tozaki T, Sakagami M, Mashima S, Hirota K, Mukoyama H. ECA-3: Equine (CA) repeat polymorphism at chromosome 2p1.3-4.. Anim Genet 1995;26:283.
                  pubmed: 7661409
                76. Vaiman D, Schibler L, Ourgeois F, Oustry A, Amigues Y, Cribiu EP. A genetic linkage map of the male goat genome.. Genetics 1996;144:279–305.
                  pmc: PMC1207502pubmed: 8878693
                77. van Haeringen H, Bowling AT, Stott ML, Lenstra JA, Zwaagstra KA. A highly polymorphic horse microsatellite locus: VHL20.. Anim Genet 1994;25:207.
                  pubmed: 7943974
                78. Vega-Pla JL, Garrido JJ, Dorado G, de Andrés-Cara DF. Three new polymorphic equine microsatellites: HLM2, HLM3, HLM5.. Anim Genet 1996;27:215.
                  pubmed: 8759131
                79. Weissenbach J, Gyapay G, Dib C, Vignal A, Morisette J, Millasseau P, Vaysseix G, Lathrop M. A second-generation linkage map of the human genome.. Nature 1992;359:794–801.
                  pubmed: 1436057
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