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Genetic linkage maps of two apple cultivars (Malus × domestica Borkh.) based on AFLP and microsatellite markers

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Abstract

Genetic linkage maps for two apple cultivars were constructed using AFLP and SSR markers and the pseudo-testcross mapping strategy. The F1-mapping population was produced by crossing the cultivar ‘Braeburn’ to the cultivar ‘Telamon’ and consisted of 257 individuals. Out of the 182 AFLP primer combinations screened, a total of 48 were selected. Using these, 463 AFLP markers segregating 1:1 in the progeny were identified, of which 231 were heterozygous in ‘Telamon’ and 232 in ‘Braeburn’. Eighty-five AFLP markers present in both cultivars (3:1 segregation) were scored in the whole mapping population. Twenty-one SSR primer pairs were tested, which clearly screened 23 loci (some multi-locus markers). This resulted in the identification of 3 loci heterozygous only in ‘Telamon’ (1:2:1), 5 loci heterozygous only in ‘Braeburn’ (1:2:1) and 15 loci which were heterozygous in both cultivars (1:1:1:1). Two linkage maps were produced. The ‘Telamon’ map comprised 259 markers (242 AFLPs and 17 SSRs) divided into 17 linkage groups. The total map length was 1039 cM with a marker density of 4.0 cM. At α = 0.05, 8.9% of the mapped loci showed distorted segregation. The ‘Braeburn’ map consisted of 264 markers (245 AFLPs and 19 SSRs) mapped on 17 linkage groups and spanning 1245 cM. The average distance between two markers was 4.7 cM and segregation distortion was observed for 18.6% of the mapped markers (α = 0.05). Fourty-six markers common to both maps (32 AFLPs and 14 SSRs) allowed the identification of 16 homologous linkage groups. The seventeenth pair of homologous linkage groups from ‘Telamon’ and ‘Braeburn’ was identified by 2 SSR markers which were in common to the genetic linkage maps of ‘Fiesta’ and ‘Discovery’, two other apple cultivars.

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References

  1. J. Aldrich C.A. Cullis (1993) ArticleTitleRAPD analysis in Flax: Optimization of yield and reproducibility using KlenTaq 1 DNA polymeraseChelex 100, and gel purification of genomic DNA Plant Mol. Biol. Rep. 11 128–141

    Google Scholar 

  2. F.H. Alston J.B. Briggs (1970) ArticleTitleInheritance of hypersensitivity to rosy apple aphid Dysaphis plantaginea in apple Can. J. Genet. Cytol. 12 257–258

    Google Scholar 

  3. I. Battle F.H. Alston (1996) ArticleTitleGenes determining leucine aminopeptidase and mildew resistance from the ornamental apple‘White Angel’ Theor. Appl. Genet. 93 179–182

    Google Scholar 

  4. J. Becker P. Vos M. Kuiper F. Salamini M. Heun (1995) ArticleTitleCombined mapping of AFLP and RFLP markers in barley Mol. Gen. Genet. 249 65–73

    Google Scholar 

  5. A.G. Brown D.M. Harvey (1971) ArticleTitleThe nature and inheritance of sweetness and acidity in the cultivated apple Euphytica 10 68–80

    Google Scholar 

  6. S.K. Brown (1992) Genetics of Apple J. Janick (Eds) Plant Breeding Reviews 9 John Wiley & Sons, Inc. N.Y. 333–358

    Google Scholar 

  7. V. Bus C. Ranatunga S. Gardiner H. Bassett E. Rikkerink (2000) ArticleTitleMarker assisted selection for pest and disease resistance in the New Zealand apple breeding programme Acta Hort. 538 541–545

    Google Scholar 

  8. Q. Cai C.L. Guy G.A. Moore (1994) ArticleTitleExtension of the linkage map in Citrus using random amplified polymorphic DNA RAPD markers and RFLP mapping of cold-acclimation-responsive loci Theor. Appl. Genet. 89 606–614

    Google Scholar 

  9. M.T. Cervera V. Storme B. Ivens J. Gusmão B.H. Liu V. Hostyn M. Van Slycken M. Van Montague W. Boerjan (2001) ArticleTitleDense genetic linkage maps of three Populus species (Populus deltoides P. nigra P. trichocarpa) based on AFLP and microsatellite markers Genetics 158 787–809 Occurrence Handle1:CAS:528:DC%2BD3MXltFSisLc%3D Occurrence Handle11404342

    CAS  PubMed  Google Scholar 

  10. P.J. Conner S.K. Brown N.F. Weeden (1997) ArticleTitleRandomly amplified polymorhic DNA-based genetic linkage maps of three apple cultivars J. Amer. Soc. Hort. Sci. 122 350–359

    Google Scholar 

  11. P.J. Conner S.K. Brown N.F. Weeden (1998) ArticleTitleMolecular marker analysis of quantitative traits for growth and development in juvenile apple trees Theor. Appl. Genet. 96 1027–1035

    Google Scholar 

  12. A. Darvasi A. Weinreb V. Minke J.I. Weller M. Soller (1993) ArticleTitleDetecting marker-QTL linkage and estimating QTL gene effect and map location using a saturated genetic map Genetics 134 943–951 Occurrence Handle1:CAS:528:DyaK3sXkvVOnu7k%3D Occurrence Handle8349116

    CAS  PubMed  Google Scholar 

  13. E. Dirlewanger V. Pronier C. Parvery C. Rothan A. Guye R. Monet (1998) ArticleTitleGenetic linkage maps of peach (Prunus persica L. Batsch) using morphological and molecular markers Theor. Appl. Genet. 97 888–895

    Google Scholar 

  14. FAO 2004. FAO website: www.fao.org.

  15. L. Gianfranceschi N. Seglias R. Tarchini M. Komjanc C. Gessler (1998) ArticleTitleSimple sequence repeats for the genetic analysis of apple Theor. Appl. Genet. 96 1069–1076

    Google Scholar 

  16. D. Grattapaglia R. Sederoff (1994) ArticleTitleGenetic linkage maps of Eucalyptus grandis Eucalyptus urophylla using a pseudo-testcross: mapping strategy and RAPD markers Genetics 137 1121–1137 Occurrence Handle1:CAS:528:DyaK2MXmslWltw%3D%3D Occurrence Handle7982566

    CAS  PubMed  Google Scholar 

  17. P. Guilford S. Prakash J.M. Zhu E. Rikkerink S. Gardiner H. Bassett R. Forster (1997) ArticleTitleMicrosatellites in Malus m domestica (apple): abundancepolymorphism and cultivar identification Theor. Appl. Genet. 94 249–254

    Google Scholar 

  18. C.S. Haley S. Knott (1992) ArticleTitleA simple regression method for mapping quantitative trait loci in line crosses using flanking markers Heredity 69 315–324

    Google Scholar 

  19. M. Hemmat S.K. Brown N.F. Weeden (2002) ArticleTitleTagging and mapping scab resitance genes from R12740–7A apple J. Amer. Soc. Hort. Sci. 127 365–370

    Google Scholar 

  20. M. Hemmat N.F. Weeden S.K. Brown (2003) ArticleTitleMapping and evaluation of Malus m domestica microsatellites in apple and pear J. Amer. Soc. Hort. Sci. 128 515–520

    Google Scholar 

  21. M. Hemmat N.F. Weeden A.G. Manganaris D.M. Lawson (1994) ArticleTitleMolecular marker linkage map for apple J. Hered. 85 4–11

    Google Scholar 

  22. S.C. Hokanson A.K. Szewc-McFadden W.F. Lamboy J.R. McFerson (1998) ArticleTitleMicrosatellite (SSR) markers reveal genetic identities, genetic diversity and relationships in a Malus m domestica Malus borkh. core subset collection Theor. Appl. Genet. 97 671–683

    Google Scholar 

  23. Hough L.F., Williams E.B., Dayton D.F., Shay J.R., Bailey C.H., Mowry J.B., Janick B. and Emerson F.H. 1970. In: Proceedings of Eucarpia Fruit Section SymposiumTree Fruit Breeding, Angers, INRA Versailles, pp. 217–230.

  24. M.A. Hurtado C. Romero S. Vilanova A.G. Abbott G. Llacer M.L. Badenes (2002) ArticleTitleGenetic linkage maps of two apricot cultivars (Prunus armeniaca L.) and mapping of PPV (sharka) resistance Theor. Appl. Genet. 105 182–191

    Google Scholar 

  25. R.C. Jansen P. Stam (1994) ArticleTitleHigh resolution of quantitative traits into multiple loci via interval mapping Genetics 136 1447–1455 Occurrence Handle1:STN:280:ByuB1czptVw%3D Occurrence Handle8013917

    CAS  PubMed  Google Scholar 

  26. M. Jeuken R. van Wijk J. Peleman P. Lindhout (2001) ArticleTitleAn integrated interspecific AFLP map of lettuce (Lactuca) based on two L. sativa m L. saligna F2 populations Theor. Appl. Genet. 103 638–647

    Google Scholar 

  27. P. Keim J.M. Schupp S.E. Travis K. Clayton T. Zhu L. Shi A. Ferreira D.M. Webb (1997) ArticleTitleA high-density soybean genetic map based on AFLP markers Crop Sci. 37 537–543

    Google Scholar 

  28. M. Kellerhals B. Furrer (1994) ArticleTitleApproaches for breeding apples with durable disease resistance Euphytica 77 31–35

    Google Scholar 

  29. M. Kellerhals L. Gianfranceschi N. Seglias C. Gessler (2000) ArticleTitleMarker-assisted selection in apple breeding Acta Hort. 521 255–261

    Google Scholar 

  30. King G.J. 1997. Development of the European Apple crop by integrating demand for high quality, disease resistant varieties suited to regional circumstances with advanced breeding methods. Final report.

  31. G.J. King J.R. Lynn C.J. Dover K.M. Evans G.B. Seymour (2001) ArticleTitleResolution of quantitative trait loci for mechanical measures accounting for genetic variation in fruit texture of apple (Malus pumila Mill.) Theor. Appl. Genet. 102 1227–1235

    Google Scholar 

  32. G.J. King C. Maliepaard J.R. Lynn F.H. Alston C.E. Durel K.M. Evans B. Griffon F. Laurens A.G. Manganaris E. Schrevens S. Tartarini J. Verhaegh (2000) ArticleTitleQuantitative genetic analysis and comparison of physical and sensory descriptors relating to fruit flesh firmness in apple (Malus pumila Mill.) Theor. Appl. Genet. 100 1074–1084

    Google Scholar 

  33. E.S. Lander D. Botstein (1989) ArticleTitleMapping mendelian factors underlying quantitative traits using RFLP linkage maps Genetics 121 185–199 Occurrence Handle1:STN:280:BiaC3sjpsVw%3D Occurrence Handle2563713

    CAS  PubMed  Google Scholar 

  34. K.O. Lapins (1976) ArticleTitleInheritance of compact growth type in apple J. Amer. Soc. Hort. Sc. 101 133–135

    Google Scholar 

  35. D.M. Lawson M. Hemmat N.F. Weeden (1995) ArticleTitleThe use of molecular markers to analyze the inheritance of morphological and developmental traits in apple J. Amer. Soc. Hort. Sci. 120 532–537

    Google Scholar 

  36. Y. Lespinasse E. Chevreau (1984) Utilisation d’un gène marqueur pour la recherche de plantes haploides de pommier: comparaison entre pollinisation manuelle et pollinisation par les abeilles In: Compte rendu du Ve symposium sur la pollinisation Versailles France 391–396

    Google Scholar 

  37. R. Liebhard L. Gianfranceschi B. Koller C.D. Ryder R. Tarchini E. Van De Weg C. Gessler (2002) ArticleTitleDevelopment and characterisation of 140 new microsatellites in apple (Malus m domestica Borkh.) Mol. Breed. 10 217–241

    Google Scholar 

  38. R. Liebhard M. Kellerhals W. Pfammatter M. Jertmini C. Gessler (2003a) ArticleTitleMapping quantitative physiological traits in apple (Malus m domestica Borkh.) Plant Mol. Biol. 52 511–526

    Google Scholar 

  39. R. Liebhard B. Koller L. Gianfranceschi C. Gessler (2003b) ArticleTitleCreating a saturated reference map for the apple (Malus m domestica Borkh.) genome Theor. Appl. Genet. 106 1497–1508

    Google Scholar 

  40. M. Lorieux M.N. Ndjiondjop A. Ghesquiere (2000) ArticleTitleA first interspecific Oryza sativa m Oryza glaberrima microsatellite-based genetic linkage map Theor. Appl. Genet. 100 593–601

    Google Scholar 

  41. C. Maliepaard F. Alston G. van Arkel L. Brown E. Chevreau F. Dunemann K. Evans S. Gardiner P. Guilford S. van Heusden J. Janse F. Laurens J. Lynn S. Manganaris T. den Nijs N. Periam E. Rikkerink P. Roche C. Ryder S. Sansavini H. Schmidt S. Tartarini J. Verhaegh R. Vrielink G. King (1999) ArticleTitleThe European apple map Acta Hort. 484 325–330

    Google Scholar 

  42. C. Maliepaard F.H. Alston G. van Arkel L.M. Brown E. Chevreau F. Dunemann K.M. Evans S. Gardiner P. Guilford A.W. van Heusden J. Janse F. Laurens J.R. Lynn A.G. Manganaris A.P.M. den Nijs N. Periam E. Rikkerink P. Roche C. Ryder S. Sansavini H. Schmidt S. Tartarini J.J. Verhaegh M. Vrielink-van Ginkel G.J. King (1998) ArticleTitleAligning male and female linkage maps of apple (Malus pumila Mill) using multi-allelic markers Theor. Appl. Genet. 97 60–73

    Google Scholar 

  43. C.M. Marques J.A. Araújo J.G. Ferreira R. Whetten D.M. O’Malley B.-H. Liu R. Sederoff (1998) ArticleTitleAFLP genetic maps of Eucalyptus globulus E. tereticornis Theor. Appl. Genet. 96 727–737

    Google Scholar 

  44. B. Meulenbroek J. Verhaegh J. Janse (1999) ArticleTitleInheritance studies with columnar type trees Acta Hort. 484 255–259

    Google Scholar 

  45. N. Nybom (1959) ArticleTitleOn the inheritance of acidity in cultivated apples Hereditas 45 332–350

    Google Scholar 

  46. A.H. Paterson E.S. Lander J.D. Hewitt S. Peterson S.E. Lincoln S.D. Tanksley (1988) ArticleTitleResolution of quantitative traits into Mendelian factors by using a complete linkage map of restriction fragment length polymorphisms Nature 335 721–726 Occurrence Handle10.1038/335721a0 Occurrence Handle1:STN:280:BiaD3MvnsVU%3D Occurrence Handle2902517

    Article  CAS  PubMed  Google Scholar 

  47. K.L. Phillips C.M. James J.B. Clarke K.M. Evans (2000) ArticleTitleIdentification of molecular markers linked to mildew resistance genes Pl-w and Pl-d in apple IOBC wprs Bulletin 23 287–290

    Google Scholar 

  48. W. Powell W.T.B. Thomas E. Baird P. Lawrence A. Booth B. Harrower J.W. McNicol R. Waugh (1997) ArticleTitleAnalysis of quantitative traits in barley by the use of amplified fragment length polymorphisms Heredity 79 48–59

    Google Scholar 

  49. E. Van de Weg B. Koller F. Dunemann C.E. Durel L. Kodde R. Liebhard A.G. Manganaris S. Tartarini (2000) ArticleTitleFive new molecular maps European project fair5 CT 97–3898, D.A.R.E. newsletternr 3 6–8

    Google Scholar 

  50. H.J. van Eck J.R. der Voort J.R. Draaistra P. van Zandvoort E. van Enckevort B. Segers J. Peleman E. Jacobsen J. Helder J. Bakker (1995) ArticleTitleThe inheritance of chromosomal localization of AFLP markers in a non-inbred potato offspring Mol. Breed. 1 397–410

    Google Scholar 

  51. J.W. Van Ooijen (1999) ArticleTitleLOD significance thresholds for QTL analysis in experimental populations of diploid species Heredity 83 613–624

    Google Scholar 

  52. J.W. Van Ooijen R.E. Voorrips (2001) JoinMap® 3.0, Software for the calculation of genetic linkage maps Plant Research International Wageningen, The Netherlands

    Google Scholar 

  53. J.W. Van Ooijen M.P. Boer R.C. Jansen C. Maliepaard (2002) MapQTL® 4.0, Software for the calculation of QTL positions on genetic maps Plant Research International Wageningen, The Netherlands

    Google Scholar 

  54. M.A. Viruel R. Messeguer M.C. De Vicente J. Garcia-Mas P. Puigdomènech F. Vargas P. Arus (1995) ArticleTitleA linkage map with RFLP and isozyme markers for almond Theor. Appl. Genet. 91 964–971

    Google Scholar 

  55. T. Visser (1970) ArticleTitleThe relation between growthjuvenile period and fruiting of apple seedlings and its use to improve breeding efficiency Euphytica 19 293–302

    Google Scholar 

  56. T. Vissen A.A. Schaap D.P. de Vries (1968) ArticleTitleAcidity and sweetness in apple and pear Euphytica 17 153–167

    Google Scholar 

  57. R.E. Voorrips (2002) ArticleTitleMapChart: Software for the graphical presentation of linkage maps and QTLs J. Hered. 93 77–78

    Google Scholar 

  58. P. Vos R. Hogers M. Bleeker M. Reijans T. van de Lee M. Hornes A. Frijters J. Pot J. Peleman M. Kuiper M. Zabeau (1995) ArticleTitleAFLP: a new technique for DNA fingerprinting Nucl. Acids Res. 23 4407–4414

    Google Scholar 

  59. M. Vuylsteke R. Mank R. Antonise E. Bastiaans M.L. Senior C.W. Stuber A.E. Melchinger T. Lübberstedt X.C. Xia P. Stam M. Zabeau M. Kuiper (1999) ArticleTitleTwo high-density AFLP linkage maps of Zea mays L.: analysis of distribution of AFLP markers Theor. Appl. Genet. 99 921–935

    Google Scholar 

  60. N.F. Weeden (1994) Approaches to mapping in horticultural crops P.M. Gresshoff (Eds) Plant Genome Analysis CRC Press Boca Raton, FA 57–68

    Google Scholar 

  61. N.F. Weeden M. Hemmat D.M. Lawson M. Lodhi R.L. Bell A.G. Manganaris B.I. Reisch S.K. Brown G.-N. Ye (1994) Development and application of molecular linkage maps in woody fruit crops H. Schmidt M. Kellerhals (Eds) Progress in Temperate Fruit Breeding Kluwer Academic Publishers Boston 269–273

    Google Scholar 

  62. E.B. Williams D.F. Dayton J.R. Shay (1966) ArticleTitleAllelic genes in Malus for resistance to Venturia Inaequalis Proc. Amer. Soc. Hort. Sci. 88 52–56

    Google Scholar 

  63. T. Yamamoto T. Kimura M. Shoda T. Imai T. Saito Y. Sawamura K. Kotobuki T. Hayashi N. Matsuta (2002) ArticleTitleGenetic linkage maps constructed by using an interspecific cross between Japanese and European pear Theor. Appl. Genet. 106 9–18

    Google Scholar 

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Kenis, K., Keulemans, J. Genetic linkage maps of two apple cultivars (Malus × domestica Borkh.) based on AFLP and microsatellite markers. Mol Breeding 15, 205–219 (2005). https://doi.org/10.1007/s11032-004-5592-2

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