A genetic linkage map of an apple rootstock progeny anchored to the Malus genome sequence

Tree Genetics and Genomes

Volumn 8, Issue 5, 2012, Pages 991-1002

  Fernandez Fernandez F ^a   Antanaviciute, L ^a   van Dyk, M M ^b   Tobutt, K R ^a,e   Evans, K M ^a,f   Rees, D J G ^c   Dunwell, J M ^d   Sargent, D J ^a  

^a EAST MALLING RESEARCH   (United Kingdom)

^b UNIVERSITY OF PRETORIA   (South Africa)

^c AGRICULTURAL RESEARCH COUNCIL   (South Africa)

^d UNIVERSITY OF READING   (United Kingdom)

^e ARC INFRUITEC NIETVOORBIJ   (South Africa)

^f WASHINGTON STATE UNIVERSITY   (United States)

Author keywords

Dwarfing rootstock; Malus pumilla; SSR marker

Indexed keywords

MALUS; MALUS X DOMESTICA;

EID: 84866738805     PISSN: 16142942     EISSN: 16142950     Source Type: Journal    
DOI: 10.1007/s11295-012-0478-7     Document Type: Article

References (46)

1. Bassil NV, Postman JD, Neou C (2005) Pyrus microsatellite markers from GenBank sequences. Proceedings of the 9th International Pear Symposium 289-292.
2. Beakbane AB, Thompson EC (1939) Anatomical studies of stems and roots of hardy fruit trees. II. The internal structure of the roots of some vigorous and some dwarfing apple rootstocks, and the correlation of structure with vigour. J Pomol Hortic Sci 17: 141-149.
3. Broggini GAL, Galli P, Parravicini G, Gianfranceschi L, Gessler C, Patocchi A (2009) HcrVf paralogs are present on linkage groups 1 and 6 of Malus. Genome 52: 129-138.
4. Broothaerts W (2003) New findings in apple S-genotype analysis resolve previous confusion and request the re-numbering of some S-alleles. Theor Appl Genet 106: 703-714.
5. Bus VGM, Chagne D, Bassett HCM, Bowatte D, Calenge F, Celton JM, Durel CE, Malone MT, Patocchi A, Ranatunga AC, Rikkerink EHA, Tustin DS, Zhou J, Gardiner SE (2008) Genome mapping of three major resistance genes to woolly apple aphid (Eriosoma lanigerum Hausm.). Tree Genet & Genomes 4: 223-236.
6. Calenge F, Drouet D, Denance C, van de Weg WE, Brisset MN, Paulin JP, Durel CE (2005) Identification of a major QTL together with several minor additive or epistatic QTLs for resistance to fire blight in apple in two related progenies. Theor Appl Genet 111: 128-135.
7. Celton JM, Tustin DS, Chagne D, Gardiner SE (2009) Construction of a dense genetic linkage map for apple rootstocks using SSRs developed from Malus ESTs and Pyrus genomic sequences. Tree Genet Genomes 5: 93-107.
8. Cevik V, King GJ (2002) High-resolution genetic analysis of the Sd-1 aphid resistance locus in Malus spp. Theor Appl Genet 105: 346-354.
9. Cummins JN, Aldwinckle HS (1983) Breeding apple rootstocks. In: Janick J (ed) Plant Breeding Reviews. Avi Publishing Co, Westport, Conn 294-394.
10. Dirlewanger E, Cosson P, Tavaud M, Aranzana MJ, Poizat C, Zanetto A, Arus P, Laigret F (2002) Development of microsatellite markers in peach [Prunus persica (L.) Batsch] and their use in genetic diversity analysis in peach and sweet cherry (Prunus avium L.). Theor Appl Genet 105: 127-138.
11. Dreesen RSG, Vanholme BTM, Luyten K, van Wynsberghe L, Fazio G, Roldan-Ruiz I, Keulemans J (2010) Analysis of Malus S-RNase gene diversity based on a comparative study of old and modern apple cultivars and European wild apple. Mol Breed 26: 693-709.
12. Durel CE, Denance C, Brisset MN (2009) Two distinct major QTL for resistance to fire blight co-localize on linkage group 12 in apple genotypes 'Evereste' and Malus floribunda clone 821. Genome 52: 139-147.
13. Evans KM, James CM (2003) Identification of SCAR markers linked to Pl-w mildew resistance in apple. Theor Appl Genet 106: 1178-1183.
14. FAOSTAT (2011) FAO Agricultural statistics http://faostat. fao. org Accessed 15 May 2011.
15. Fernández-Fernández F, Harvey NG, James CM (2006) Isolation and characterization of polymorphic microsatellite markers from European pear (Pyrus communis L.). Mol Ecol Notes 6: 1039-1041.
16. Fernández-Fernández F, Evans KM, Clarke JB, Govan CL, James CM, Maric S, Tobutt KR (2008) Development of an STS map of an interspecific progeny of Malus. Tree Genet & Genomes 4: 469-479.
17. Gasic K, Han Y, Kertbundit S, Shulaev V, Iezzoni AF, Stover EW, Bell RL, Wisniewski ME, Korban SS (2009) Characteristics and transferability of new apple EST-derived SSRs to other Rosaceae species. Mol Breed 23: 397-411.
18. Gianfranceschi L, Koller B, Seglias N, Kellerhals M, Gessler C (1996) Molecular selection in apple for resistance to scab caused by Venturia inaequalis. Theor Appl Genet 93: 199-204.
19. Gianfranceschi L, Seglias N, Tarchini R, Komjanc M, Gessler C (1998) Simple sequence repeats for the genetic analysis of apple. Theor Appl Genet 96: 1069-1076.
20. Guilford P, Prakash S, Zhu JM, Rikkerink E, Gardiner S, Bassett H, Forster R (1997) Microsatellites in Malus × domestica (apple): abundance, polymorphism and cultivar identification. Theor Appl Genet 94: 249-254.
21. Hemmat M, Weeden NF, Manganaris AG, Lawson DM (1994) Molecular marker linkage map for apple. J Hered 85: 4-11.
22. Hemmat M, Weeden NF, Conner PJ, Brown SK (1997) A DNA marker for columnar growth habit in apple contains a simple sequence repeat. J Am Soc Hortic Sci 22: 347-349.
23. Hemmat M, Weeden NF, Brown SK (2003) Mapping and evaluation of Malus × domestica microsatellites in apple and pear. J Am Soc Hortic Sci 28: 515-520.
24. Hokanson SC, Szewc-McFadden AK, Lamboy WF, McFerson JR (1998) Microsatellite (SSR) markers reveal genetic identities, genetic diversity and relationships in a Malus × domestica Borkh. core subset collection. Theor Appl Genet 97: 671-683.
25. Inoue E, Matsuki Y, Anzai H, Evans K (2007) Isolation and characterization of microsatellite markers in Japanese pear (Pyrus pyrifolia Nakai). Mol Ecol Notes 7: 445-447.
26. Kenis K, Keulemans J (2007) Study of tree architecture of apple (Malus × domestica Borkh.) by QTL analysis of growth traits. Mol Breed 19: 193-208.
27. Liebhard R, Gianfranceschi L, Koller B, Ryder CD, Tarchini R, van de Weg E, Gessler C (2002) Development and characterisation of 140 new microsatellites in apple (Malus × domestica Borkh.). Mol Breed 10: 217-241.
28. Liebhard R, Koller B, Gianfranceschi L, Gessler C (2003) Creating a saturated reference map for the apple (Malus × domestica Borkh.) genome. Theor Appl Genet 106: 1497-1508.
29. Maliepaard C, Alston FH, van Arkel G, Brown LM, Chevreau E, Dunemann F, Evans KM, Gardiner S, Guilford P, van Heusden AW, Janse J, Laurens F, Lynn JR, Manganaris AG, den Nijs APM, Periam N, Rikkerink E, Roche P, Ryder C, Sansavini S, Schmidt H, Tartarini S, Verhaegh JJ, Vrielink-van Ginkel M, King GJ (1998) Aligning male and female linkage maps of apple (Malus pumila Mill.) using multi-allelic markers. Theor Appl Genet 97: 60-73.
30. Micheletti D, Troggio M, Zharkikh A, Costa F, Malnoy M, Velasco R, Salvi S (2011) Genetic diversity of the genus Malus and implications for linkage mapping with SNPs Tree Genetics and Genomes 7(4): 857-868.
31. Naik S, Hampson C, Gasic K, Bakkeren G, Korban SS (2006) Development and linkage mapping of E-STS and RGA markers for functional gene homologues in apple. Genome 49: 959-968.
32. Newcomb RD, Crowhurst RN, Gleave AP, Rikkerink EHA, Allan AC, Beuning LL, Bowen JH, Gera E, Jamieson KR, Janssen BJ, Laing WA, McArtney S, Nain B, Ross GS, Snowden KC, Souleyre EFJ, Walton EF, Yauk WK (2006) Analyses of Expressed Sequence Tags from apple. Plant Physiology 141: 147-166.
33. Oddou-Muratorio S, Aligon C, Decroocq S, Plomion C, Lamant T, Mush-Demesure B (2001) Microsatellite primers for Sorbus torminalis and related species. Mol Ecol Notes 1: 297-299.
34. Pilcher RLR, Celton JM, Gardiner SE, Tustin DS (2008) Genetic markers linked to the dwarfing trait of apple rootstock 'Malling 9'. J Am Soc Hortic Sci 133: 100-106.
35. Potter D, Eriksson T, Evans RC, Oh S, Smedmark JEE, Morgan DR, Kerr M, Robertson KR, Arsenault M, Dickinson TA, Campbell CS (2007) Phylogeny and classification of Rosaceae. Plant Syst Evol 266: 5-43.
36. Sargent DJ, Rys A, Nier S, Simpson DW, Tobutt KR (2007) The development and mapping of functional markers in Fragaria and their transferability and potential for mapping in other genera. Theor Appl Genet 114: 373-384.
37. Segura V, Cilas C, Costes E (2008) Dissecting apple tree architecture into genetic, ontogenetic and environmental effects: mixed linear modelling of repeated spatial and temporal measures. New Phytol 178: 302-314.
38. Silfverberg-Dilworth E, Matasci CL, van de Weg WE, van Kaauwen MPW, Walser M, Kodde LP, Soglio V, Gianfranceschi L, Durel CE, Costa F, Yamamoto T, Koller B, Gessler C, Patocchi A (2006) Microsatellite markers spanning the apple (Malus × domestica Borkh.) genome. Tree Genet & Genomes 2: 202-224.
39. Testolin R, Marrazzo T, Cipriani G, Quarta R, Verde I, Dettori MT, Pancaldi M, Sansavini S (2000) Microsatellite DNA in peach (Prunus persica L. Batsch) and its use in fingerprinting and testing the genetic origin of cultivars. Genome 43: 512-520.
40. van Dyk MM, Soeker MK, Labuschagne IF, Rees DJG (2010) Identification of a major QTL for time of initial vegetative budbreak in apple (Malus × domestica Borkh.). Tree Genet & Genomes 6: 489-502.
41. Velasco R, Zharkikh A, Affourtit J, Dhingra A, Cestaro A, Kalyanaraman A, Fontana P, Bhatnagar SK, Troggio M, Pruss D, Salvi S, Pindo M, Baldi P, Castelletti S, Cavaiuolo M, Coppola G, Costa F, Cova V, Dal Ri A, Goremykin V, Komjanc M, Longhi S, Magnago P, Malacarne G, Malnoy M, Micheletti D, Moretto M, Perazzolli M, Si-Ammour A, Vezzulli S, Zini E, Eldredge G, Fitzgerald LM, Gutin N, Lanchbury J, Macalma T, Mitchell JT, Reid J, Wardell B, Kodira C, Chen Z, Desany B, Niazi F, Palmer M, Koepke T, Jiwan D, Schaeffer S, Krishnan V, Wu C, Chu VT, King ST, Vick J, Tao Q, Mraz A, Stormo A, Stormo K, Bogden R, Ederle D, Stella A, Vecchietti A, Kater MM, Masiero S, Lasserre P, Lespinasse Y, Allan AC, Bus V, Chagne D, Crowhurst RN, Gleave AP, Lavezzo E, Fawcett JA, Proost S, Rouze P, Sterck L, Toppo S, Lazzari B, Hellens RP, Durel CE, Gutin A, Bumgarner RE, Gardiner SE, Skolnick M, Egholm M, van de Peer Y, Salamini F, Viola R (2010) The genome of the domesticated apple (Malus × domestica Borkh.). Nat Genet 42: 833-+.
42. Vinatzer BA, Patocchi A, Tartarini S, Gianfranceschi L, Sansavini S, Gessler C (2004) Isolation of two microsatellite markers from BAC clones of the Vf scab resistance region and molecular characterization of scab-resistant accessions in Malus germplasm. Plant Breed 123: 321-326.
43. Voorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. J Hered 93: 77-78.
44. Yamamoto T, Kimura T, Sawamura Y, Manabe T, Kotobuki K, Hayashi T, Ban Y, Matsuta N (2002a) Simple sequence repeats for genetic analysis in pear. Euphytica 124: 129-137.
45. Yamamoto T, Kimura T, Shoda M, Ban Y, Hayashi T, Matsuta N (2002b) Development of microsatellite markers in the Japanese pear (Pyrus pyrifolia Nakai). Mol Ecol Notes 2: 14-16.
46. Yamamoto T, Kimura T, Shoda M, Imai T, Saito T, Sawamura Y, Kotobuki K, Hayashi T, Matsuta N (2002c) Genetic linkage maps constructed by using an interspecific cross between Japanese and European pears. Theor Appl Genet 106: 9-18.