Wide range QTL analysis for complex architectural traits in a 1-year-old apple progeny

Genome

Volumn 50, Issue 2, 2007, Pages 159-171

  Segura, V ^a   Denance C ^b   Durel, C E ^b   Costes, E ^a  

^a MONTPELLIER SUPAGRO   (France)

^b UNIVERSITÉ D'ANGERS   (France)

Author keywords

Branching; Growth; Malus x domestica Borkh.; QTL mapping; Tree architecture

Indexed keywords

APPLE; ARTICLE; BIOLOGICAL MODEL; CHROMOSOME MAP; CROSS BREEDING; GENE; GENETICS; PHENOTYPE; PLANT PHYSIOLOGY; QUANTITATIVE TRAIT LOCUS; TREE;

CHROMOSOME MAPPING; CROSSES, GENETIC; GENES, PLANT; MALUS; MODELS, GENETIC; PHENOTYPE; PLANT PHYSIOLOGY; QUANTITATIVE TRAIT LOCI; TREES;

MALUS X DOMESTICA;

EID: 34249803589     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/G07-002     Document Type: Article

References (63)

1. Alméras, T., Costes, E., and Salles, J.C. 2004. Identification of biomechanical factors involved in stem shape variability between apricot tree varieties. Ann. Bot. (London), 93: 455-468. doi:10.1093/aob/mch054.
2. Bernardo, R. 2004. What proportion of declared QTL in plants are false? Theor. Appl. Genet. 109: 419-424.
3. Bonhomme, R. 2000. Bases and limits to using "degree-day" units. Eur. J. Agron. 13: 1-10. doi:10.1016/S1161-0301(00)00058-7.
4. Churchill, G.A., and Doerge, R.W. 1994. Empirical threshold values for quantitative trait mapping. Genetics, 138: 963-971.
5. Cline, M.G. 1997. Concepts and terminology of apical dominance. Am. J. Bot. 84: 1064-1069. doi:10.2307/2446149.
6. Conner, P.J., Brown, S.K., and Weeden, N.F. 1997. Randomly amplified polymorphic DNA-based genetic linkage maps of three apple cultivars. J. Am. Soc. Hortic. Sci. 122: 350-359.
7. Conner, P.J., Brown, S.K., and Weeden, N.F. 1998. Molecular-marker analysis of quantitative traits for growth and development in juvenile apple trees. Theor. Appl. Genet. 96: 1027-1035. doi:10.1007/s001220050835.
8. Cook, N.C., Bellstedt, D.U., and Jacobs, G. 2001. Endogeneous cytokinin distribution patterns at budburst in Granny Smith and
9. Braeburn apple shoots in relation to shoot growth. Sci. Hortic. 87: 53-63.
10. Costes, E., and Guédon, Y. 2002. Modelling branching patterns in 1-year-old trunks of six apple cultivars. Ann. Bot. (London), 89: 513-524. doi:10.1093/aob/mcf078.
11. Costes, E., Belouin, A., Brouard, L., and Le Lezec, M. 2004. Development of young pear tree architecture and occurrence of first flowering: a varietal comparison. J. Hortic. Sci. Biotechnol. 79: 67-74.
12. Costes, E., Lauri, P.E., and Regnard, J.L. 2006. Analysing fruit tree architecture, implication for tree management and fruit production. In Horticultural Reviews. Edited by J. Janick. John Wiley & Sons, Inc., Hoboken, N.J. pp 1-61.
13. De Wit, I., Cook, N.C., and Keulemans, J. 2004. Characterization of tree architecture in two-year-old apple seedling populations of different progenies with a common columnar gene parent. Acta Hortic. 663: 363-368.
14. Durel, C.E., Laurens, F., Fouillet, A., and Lespinasse, Y. 1998. Utilization of pedigree information to estimate genetic parameters from large unbalanced data sets in apple. Theor. Appl. Genet. 91: 1077-1085.
15. Edelin, C. 1991. Nouvelles données sur l'architecture des arbres sympodiaux: le concept de plan d'organisation. In L'arbre, biologie et développement. Edited by C. Edelin. Naturalia Monspeliensia, Montpellier, France. pp. 127-154.
16. Elfving, D.C., and Visser, D.B. 2005. Cyclanilide induces lateral branching in apple trees. HortScience, 40: 119-122.
17. Gallais, A. 1989. Théorie de la sélection en amélioration des plantes. Masson, Paris, France.
18. Godin, C., and Guédon, Y. 2003. AMAPmod version 1.8. Introduction and reference manual. CIRAD, Montpellier, France.
19. Godin, C., Guédon, Y., Costes, E., and Caraglio, Y. 1997. Measuring and analyzing plants with the AMAPmod software. In Advances in computational life science. Edited by M. Michalewicz. CSIRO, Melbourne, Australia. pp. 54-84.
20. Godin, C., Costes, E., and Sinoquet, H. 1999. A method for describing plant architecture which integrates topology and geometry. Ann. Bot. (London), 84: 343-357. doi:10.1006/anbo.1999. 0923.
21. Guilford, P., Prakash, S., Zhu, J.M., Rikkerink, E., Gardiner, S., Bassett, H., and Forster, R. 1997. Microsatellites in Malus x domestica (apple): abundance, polymorphism, and cultivar identification. Theor. Appl. Genet. 94: 249-254. doi:10.1007/s001220050407.
22. Hansche, P.E., Hesse, C.O., and Beres, V. 1972. Estimates of genetic and environmental effects on several traits in peach. J. Am. Soc. Hortic. Sci. 97: 76-79.
23. Hemmat, M., Weeden, N.F., Conner, P.J., and Brown, S.K. 1997. A DNA marker for columnar growth habit in apple contains a simple sequence repeat. J. Am. Soc. Hortic. Sci. 122: 347-349.
24. Hemmat, M., Weeden, N.F., and Brown, S.K. 2003. Mapping and evaluation of Malus x domestica microsatellites in apple and pear. J. Am. Soc. Hortic. Sci. 128: 515-520.
25. Jansen, R.C., and Stam, P. 1994. High resolution of quantitative traits into multiple loci via interval mapping. Genetics, 136: 1447-1455.
26. Kenis, K., and Keulemans, J. 2004. QTL analysis of growth characteristics in apple. Acta Hortic. 663: 369-374.
27. Kenis, K., and Keulemans, J. 2005. Genetic linkage maps of two apple cultivars (Malus x domestica Borkh.) based on AFLP and microsatellite markers. Mol. Breed. 15: 205-219. doi:10.1007/ s11032-004-5592-2.
28. Khush, G.S. 2001. Green revolution: the way forward. Nat. Rev. Genet. 2: 815-822. doi:10.1038/35093585.
29. Kim, M.Y., Song, K.J., Hwang, J.H., Shin, Y.U., and Lee, H.J. 2003. Development of RAPD and SCAR markers linked to the Co gene conferring columnar growth habit in apple (Malus pumila Mill.). J. Hortic. Sci. Biotechnol. 78: 512-517.
30. Knapp, S.J., Stroup, W.W., and Roos, W.M. 1985. Exact confidence intervals for heritability on a progeny mean basis. Crop Sci. 25: 192-194.
31. Labuschagne, I.F., Louw, J.H., Schmidt, K., and Sadie, A. 2002. Genetic variation in chilling requirement in apple progeny. J. Am. Soc. Hortic. Sci. 127: 663-672.
32. Lander, E.S., and Botstein, D. 1989. Mapping mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics, 121: 185-199.
33. Lapins, K.O. 1974. Spur type growth habit in 60 apple progenies. J. Am. Soc. Hortic. Sci. 99: 568-572.
34. Lapins, K.O. 1976. Inheritance of compact growth type in apple. J. Am. Soc. Hortic. Sci. 101: 133-135.
35. Laurens, F. 1999. Review of the current apple breeding programmes in the world: objectives for scion cultivar improvement. Acta Hortic. 484: 163-170.
36. Laurens, F., Audergon, J., Claverie, J., Duval, H., Germain, E., Kervella, J., et al. 2000. Integration of architectural types in French programmes of ligneous fruit species genetic improvement. Fruits (Paris), 55: 141-152.
37. Lauri, P.E., and Lespinasse, J.M. 1999. Apple tree training in France: current concepts and practical implications. Fruits (Paris), 54: 441-449.
38. Lauri, P.E., Terouanne, E., Lespinasse, J.M., Regnard, J.L., and Kelner, J.J. 1995. Genotypic differences in the axillary bud growth and fruiting pattern of apple fruiting branches over several years - an approach to regulation of fruit bearing. Sci. Hortic. 64: 265-281.
39. Lawson, D.M., Hemmat, M., and Weeden, N.F. 1995. The use of molecular markers to analyse the inheritance of morphological and developmental traits in apple. J. Am. Soc. Hortic. Sci. 120: 532-537.
40. Lespinasse, J.M. 1977. La conduite du pommier: Types de fructification, incidence sur la conduite de l'arbre. INVUFLEC Paris, France.
41. Lespinasse, Y. 1992. Le pommier. In Amélioration des espèces végétales cultivées, objectifs et critères de sélection. Edited by A. Gallais and H. Bannerot. INRA Editions, Paris, France. pp. 579-594.
42. Lespinasse, J.M., and Delort, F. 1986. Apple tree management in vertical axis: appraisal after ten years of experiments. Acta Hortic. 160: 120-155.
43. Liebhard, R., Kellerhals, M., Pfammatter, W., Jertmini, M., and Gessler, C. 2003a. Mapping quantitative physiological traits in apple (Malus x domestica Borkh.). Plant Mol. Biol. 52: 511-526. doi:10.1023/A: 1024886500979.
44. Liebhard, R., Roller, B., Gianfranceschi, L., and Gessler, C. 2003b. Creating a saturated reference map for the apple (Malus x domestica Borkh.) genome. Theor. Appl. Genet. 106: 1497-1508.
45. Maliepaard, C., Alston, F., van Arkel, G., Brown, L.M., Chevreau, E., Dunemann, F., et al. 1998. Aligning male and female linkage maps of apple (Malus pumila Mill.) using multi-allelic markers. Theor. Appl. Genet. 97: 60-73. doi:10.1007/s001220050867.
46. Miller, S.S. 1988. Plant bioregulators in apple and pear culture. In Horticultural reviews. Edited by J. Janick. John Wiley & Sons, Inc., Hoboken, N.J. pp 309-401.
47. Oraguzie, N.C., Hofstee, M.E., Brewer, L.R., and Howard, C. 2001. Estimation of genetic parameters in a recurrent selection program in apple. Euphytica, 118: 29-37. doi: 10.1023/ A:1004056423344.
48. Renton, M., Guedon, Y., Godin, C., and Costes, E. 2006. Similarities and gradients in growth unit branching patterns during ontogeny in 'Fuji' apple trees: a stochastic approach. J. Exp. Bot. 57: 3131-3143.
49. Salamini, F. 2003. Hormones and the green revolution. Science (Washington, D.C.), 302: 71-72. doi:10.1126/science.1090811.
50. SAS Institute Inc. 2000. SAS user's guide: statistics. SAS Institute Inc., Cary, N.C.
51. Segura, V., Cilas, C., Laurens, F., and Costes, E. 2006. Phenotyping progenies for complex architectural traits: a strategy for 1-year-old apple trees (Malus x domestica Borkh.). Tree Genet. Genomes, 2: 140-151.
52. Shimizu-Sato, S., and Mori, H. 2001. Control of outgrowth and dormancy in axillary buds. Plant Physiol. 127: 1405-1413. doi:10.1104/pp.127.4.1405.
53. Silfverberg-Dilworth, E., Matasci, C.L., Van de Weg, W.E., Van Kaauwen, M.P.W., Walser, M., Kodde, L.P., et al. 2006. Microsatellite markers spanning the apple (Malus x domestica Borkh.) genome. Tree Genet. Genomes, 2: 202-224.
54. Sillanpää, M.J., and Corander, J. 2002. Model choice in gene mapping: what and why. Trends Genet. 18: 301-307. doi:10.1016/ S0168-9525(02)02688-4.
55. Sinoquet, H., Sonohat, G., Phattaralerphong, J., and Godin, C. 2005. Foliage randomness and light interception in 3-D digitized trees: an analysis from multiscale discretization of the canopy. Plant Cell Environ. 28: 1158-1170. doi:10.1111/j.1365-3040. 2005.01353.x.
56. Souza, V.A.B., Byrne, D.H., and Taylor, J.F. 1998. Heritability, genetic and phenotypic correlations, and predicted selection response of quantitative traits in peach: II. An analysis of several fruit traits. J. Am. Soc. Hortic. Sci. 123: 604-611.
57. Tanksley, S.D., Young, N.D., Paterson, A.H., and Bonierbale, M.W. 1989. RFLP mapping in plant breeding: new tools for an old science. Biotechnology, 7: 257-264.
58. Van Ooijen, J.W., Boer, M.P., Jansen, R.C., and Maliepaard, C. 2002. MAPQTL® 4.0, Software for the calculation of QTL positions on genetic maps. Plant Research International. Wageningen, the Netherlands.
59. Voorrips, R.E. 2001. MapChart® version 2.1: Windows software for the graphical presentation of linkage maps and QTLs. Plant Research International. Wageningen, the Netherlands.
60. Watkins, R., and Spangelo, L.P.S. 1970. Components of genetic variance for plant survival and vigor of apple trees. Theor. Appl. Genet. 40: 195-203.
61. Wertheim, S.J. 1978. Manual and chemical induction of side-shoot formation in apple trees in the nursery. Sci. Hortic. 9: 337-345. doi:10.1016/0304-4238(78)90043-2.
62. Willaume, M., Lauri, P.E., and Sinoquet, H. 2004. Light interception in apple trees influenced by canopy architecture manipulation. Trees (Berk), 18: 705-713.
63. Yamamoto, T., Kimura, T., Saito, T., Kotobuki, K., Matsuta, N., Liebhard, R., et al. 2004. Genetic linkage maps of Japanese and European pears aligned to the apple consensus map. Acta Hortic. 663: 51-56.