Mapping quantitative trait loci associated with blush in peach [Prunus persica (L.) Batsch]

Tree Genetics and Genomes

Volumn 10, Issue 2, 2014, Pages 367-381

  Frett, Terrence J ^a   Reighard, Gregory L ^a   Okie, William R ^b   Gasic, Ksenija ^a  

^a CLEMSON UNIVERSITY   (United States)

^b AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

Anthocyanin; Candidate gene; QTLs

Indexed keywords

EID: 84897020803     PISSN: 16142942     EISSN: 16142950     Source Type: Journal    
DOI: 10.1007/s11295-013-0692-y     Document Type: Article

References (78)

1. Ahmad R, Parfitt DE, Fass J, Ogundiwin E, Dhingra A, Gradziel TM, Lin DW, Joshi NA, Martinez-Garcia PJ, Crisosto CH (2011) Whole genome sequencing of peach (Prunus persica L.) for SNP identification and selection. BMC Genomics 12: 1471-2164.
2. Allan AC, Hellens RP, Laing WA (2008) MYB transcription factors that colour our fruit. Trends Plant Sci 13: 99-102.
3. Altschul SF, Madden TL, Schäffer AA, Jinghui Z, Zheng Z, Webb M, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
4. Arazana MJ, Illa E, Howard W, Arus P (2012) A first insight into peach [Prunus persica (L.) Batsch] SNP variability. Tree Genet Genomes 8: 1359-1369.
5. Arus P, Verde I, Sosinksi B, Zhebentyayeva T, Abbott A (2012) The peach genome. Tree Genet Genomes 8: 531-547.
6. Balasundram N, Sundram K, Samman S (2006) Phenolic compounds in plants and agri-industrial by-products: antioxidant activity, occurrence, and potential uses. Food Chem 99: 191-203.
7. Ban Y, Honda C, Hatsuyama Y, Igarashi M, Bessho H, Moriguchi T (2007) Isolation and functional analysis of a MYB transcription factor gene that is a key regulator for the development of red coloration in apple skin. Plant Cell Physiol 48: 958-970.
8. Beckman TG, Sherman WB (2003) Probable qualitative inheritance of full red skin color in peach. HortSci 38: 1184-1185.
9. Beckman TG, Alcazar JR, Sherman WB, Werner DJ (2005) Evidence for qualitative suppression of red skin color in peach. HortSci 40: 523-524.
10. Bliss FA (2010) Marker-assisted breeding in horticultural crops. Acta Hort 859: 339-350.
11. Brody JR and Kern SE (2004) Sodium boric acid: a Tris-free, cooler conductive medium for DNA electrophoresis. Biotechniques 36: 214-216.
12. Byrne DH (2005) Trends in stone fruit cultivar development. Hort Technol 15: 494-500.
13. Byrne DH, Nikolic AN, Burns EE (1991) Variability in sugars, acids, firmness, and color characteristics of 12 peach genotypes. J Amer Soc Hort Sci 116: 1004-1006.
14. Byrne DH, Vizzotto M, Cisneros-Zevallos L, Ramming D, Okie WR (2004) Antioxidant content of peach and plum genotypes. HortSci 39: 798.
15. Cantín CM, Moreno MA, Gogorcena Y (2009) Evaluation of the antioxidant capacity, phenolic compounds, and vitamin C content of different peach and nectarine [Prunus persica (L.) Batsch] breeding progenies. J Agric Food Chem 57: 4586-4592.
16. Cantín CM, Crisosto CH, Ogundiwin EA, Gradziel T, Torrents J, Moreno MA, Gogorcena Y (2010) Chilling injury susceptibility in an intra-specific peach [Prunus persica (L.) Bastch] progeny. Postharvest Biol Technol 58: 79-87.
17. Cevallos-Casals BA, Byrne D, Okie WR, Cisneros-Zevallos L (2006) Selecting new peach and plum genotypes rich in phenolic compounds and enhanced functional properties. Food Chem 96: 273-280.
18. Chang S, Tan C, Frankel EN, Barrett DM (2000) Low density lipoprotein antioxidant activity of phenolic compounds and polyphenol oxidase activity in selected clingstone peach cultivars. J Agric Food Chem 48: 147-151.
19. Chagné D, Carlisle CM, Blond C, Volz RK, Whitworth CJ, Oraguzie NC, Crowhurst RN, Allan AC, Espley RV, Hellens RP, Gardiner SE (2007) Mapping a candidate gene (MdMYB10) for red flesh and foliage colour in apple. BMC Genomics 8: 212.
20. Chagné D, Lin-Wang K, Espley RV, Volz RK, How NM, Rouse S, Brendolise C, Carlisle CM, Kumar S, Silva ND, Micheletti D, McGhie T, Crowhurst RN, Storey RD, Velasco R, Hellens RP, Gardiner SE, Allan AC (2013) An ancient duplication of apple MYB transcription factors is responsible for novel red fruit-flesh phenotypes. Plant Physiol 161: 225-239.
21. Chaparro JX, Werner DJ, Omalley D, Sederoff RR (1994) Targeted mapping and linkage analysis of morphological isozyme, and RAPD markers in peach. Theor Appl Genet 87: 805-815.
22. Delwiche MJ, Baumgardner RA (1983) Ground color measurements of peach. J Amer Soc Hort Sci 108: 1012-1016.
23. Delwiche MJ, Baumgardner RA (1985) Ground color as a peach maturity index. J Amer Soc Hort Sci 110: 53-57.
24. Dirlewanger E, Graziano E, Joobeur T, Garriga-Caldere F, Cosson P, Howad W, Arus P (2004) Comparative mapping and marker-assisted selection in Rosaceae fruit crops. PNAS 101: 9891-9896.
25. Eduardo I, Chietera G, Pirona R, Pacheco I, Troggio M, Banchi E, Bassi D, Rossini L, Vecchietti A, Pozzi C (2012) Genetic dissection of aroma volatile compounds from the essential oil of peach fruit: QTL analysis and identification of candidate genes using dense SNP maps. Tree Genet Genomes. doi: 10. 1007/s11295-012-0546-z.
26. Espley RV, Hellens RP, Putterill J, Stevenson DE, Kutty-Amma S, Allan AC (2007) Red colouration in apple fruit is due to the activity of the MYB transcription factor, MdMYB10. Plant J 49: 414-427.
27. Espley RV, Brendolise C, Chagné D, Kutty-Amma S, Green S, Volz R, Putterill J, Schouten HJ, Gardiner SE, Hellens RP, Allan AC (2009) Multiple repeats of a promoter segment causes transcription factor autoregulation in red apples. Plant Cell 21: 168-183.
28. Fan S, Bielenberg DG, Zhebentyayeva TN, Reighard GL, Okie WR, Holland D, Abbott AG (2010) Mapping quantitative trait loci associated with chilling requirement, heat requirement and bloom date in peach (Prunus persica). New Phytol 185: 917-930.
29. Frett TJ, Gasic K, Clark JR, Byrne D, Gradziel T, Crisosto C (2012) Standardized phenotyping for fruit quality in peach [Prunus persica (L.) Batsch]. J Amer Pomological Soc 66(4): 214-219.
30. Gil MI, Tomás-Barberán FA, Hess-Pierce B, Kader AA (2002) Antioxidant capacities, phenolic compounds, carotenoids, and vitamin C contents of nectarine, peach, and plum cultivars from California. J Agric Food Chem 50: 4976-4982.
31. Gorinstein S, Martin-Belloso O, Lojek A, Číž M, Soliva-Fortuny R, Park Y-S, Caspi A, Libman I, Trakhtenberg S (2002) Comparative content of some phytochemicals in Spanish apples, peaches and pears. J Sci Food Agric 82: 1166-1170.
32. Holton TA, Cornish EC (1995) Genetics and biochemistry of anthocyanin biosynthesis. Plant Cell 7: 1071-1083.
33. Howad W, Yamamoto T, Dirlewanger E, Testolin R, Cosson P, Cipriani G, Monforte AJ, Georgi L, Abbott AG, Arus P (2005) Mapping with a few plants: using selective mapping for microsatellite saturation of the Prunus reference map. Genet 171: 1305-1309.
34. Hsia CL, Luh BS, Chichester CO (1965) Anthocyanin in freestone peaches. J Food Sci 30: 5.
35. Illa E, Eduardo I, Audergon J, Barale F, Dirlewanger E, Li X, Moing A, Lambert P, Le Dantec L, Gao Z, Poessel J-L, Pozzi C, Rossini L, Vecchietti A, Arus P, Howad W (2011) Saturating the Prunus (stone fruits) genome with candidate genes for fruit quality. Mol Breed 28: 667-682.
36. Jansen RC, Stam P (1994) High resolution of quantitative traits into multiple loci via interval mapping. Genet 136: 1447-1455.
37. Jauregui B, de Vicente MC, Messeguer R, Felipe A, Bonnet A, Salesses G, Arus P (2001) A reciprocal translocation between 'Garfi' almond and 'Nemared' peach. Theor Appl Genet 102: 1169-1176.
38. Jung S, Cestaro A, Troggio M, Main D, Zheng P, Cho I, Folta KM, Sosinski B, Abbott A, Celton J-M, Arus P, Shulaev V, Verde I, Morgante M, Rokhsar DS, Velasco R, Sargent DJ (2012) Whole genome comparisons of Fragaria, Prunus and Malus reveal different modes of evolution between Rosaceous subfamilies. BMC Genomics 13: 129.
39. Kobayashi S, Goto-Yamamoto N, Hirochika H (2004) Retrotransposon-induced mutations in grape skin color. Sci 304: 982.
40. Kobayashi S (2009) Regulation of anthocyanin biosynthesis in grapes. J Japanese Soc Hort Sci 78: 387-393.
41. Kosambi D (1944) The estimation of map distances from recombination values. Ann Eugen 12: 172-175.
42. Lambert P, Pascal T (2011) Mapping Rm2 gene conferring resistance to the green peach aphid (Myzus persicae Sulzer) in the peach cultivar "Rubira®". Tree Genet Genomes 7: 1057-1068.
43. Layne DR, Jiang ZW, Rushing JW (2001) Tree fruit reflective film improves red skin coloration and advances maturity in peach. Hort Technol 11: 234-242.
44. Lin-Wang K, Bolitho K, Grafton K, Kortstee A, Karunairetnam S, McGhie TK, Espley RV, Hellens RP, Allan AC (2010) An R2R3 MYB transcription factor associated with regulation of the anthocyanin biosynthetic pathway in Rosaceae. BMC Plant Biol 10: 50. doi: 10. 1186/1471-2229-10-50.
45. Marini RP, Sowers D, Marini MC (1991) Peach fruit-quality is affected by shade during final swell of fruit-growth. J Amer Soc Hort Sci 116: 383-389.
46. Martinez-Garcia P, Parfitt D, Ogundiwin E, Fass J, Chan H, Ahmad R, Lurie S, Dandekar A, Gradziel T, Crisosto C (2012) High density SNP mapping and QTL analysis for fruit quality characteristics in peach (Prunus persica L.). Tree Genet Genomes 9: 1-18. doi: 10. 1007/s11295-012-0522-7.
47. McCallum S, Woodhead M, Hackett C, Kassim A, Paterson A, Graham J (2010) Genetic and environmental effects influencing fruit colour and QTL analysis in raspberry. Theor Appl Genet 121: 611-627.
48. Ogundiwin EA, Peace CP, Gradziel TM, Dandekar AM, Bliss FA, Crisosto CH (2007) Molecular genetic dissection of chilling injury in peach fruit. Acta Hort 738: 633-638.
49. Ogundiwin EA, Peace CP, Nicolet CM, Rashbrook VK, Gradziel TM, Bliss FA, Parfitt D, Crisosto CH (2008) Leucoanthocyanidin dioxygenase gene (PpLDOX): a potential functional marker for cold storage browning in peach. Tree Genet Genomes 4: 543-554.
50. Ogundiwin EA, Peace CP, Gradziel TM, Parfit DE, Bliss FA, Crisosto CH (2009) A fruit quality gene map of Prunus. BMC Genomics 10: 587.
51. Okie WR, Bacon T, Bassi D (2008) Fresh market cultivar development. In: Layne DR, Bassi D (eds) The peach, botany, production and uses. CABI, Cambridge, pp 139-174.
52. Parr AJ, Bolwell GP (2000) Phenols in the plant and in man. The potential for possible nutritional enhancement of the diet by modifying the phenols content or profile. J Sci Food Agric 80: 985-1012.
53. Quilot B, Wu BH, Kervella J, Genard M, Foulongne M, Moreau K (2004) QTL analysis of quality traits in an advanced backcross between Prunus persica cultivars and the wild relative species P. davidiana. Theor Appl Genet 109: 884-897.
54. Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics Methods and Protocols: Methods in Molecular Biology. Humana Press, Totowa, NJ, USA, pp 365-386.
55. Sargent DJ, Marchese A, Simpson DW, Howad W, Fernandez-Fernandez F, Monfort A, Arus P, Evans KM, Tobutt KR (2009) Development of "universal" gene-specific markers from Malus spp. cDNA sequences, their mapping and use in synteny studies within Rosaceae. Tree Genet Genomes 5: 133-145.
56. Schijlen EGWM, Ric de Vos CHR, van Tunen AJ, Bovy AG (2004) Modification of flavonoid biosynthesis in crop plants. Phytochem 65: 2631-2648.
57. Scorza R, Sherman WB (1996) Peaches. In: Janick J, Moore JN (eds) Fruit Breeding. Wiley, New York, pp 325-440.
58. Shulaev V, Korban SS, Sosinski B, Abbott AG, Aldwinckle HS, Folta KM, Iezzoni A, Main D, Arus P, Dandekar AM, Lewers K, Brown SK, Davis TM, Gardiner SE, Potter D, Veilleux RE (2008) Multiple models for Rosaceae genomics. Amer Soc Plant Biologists 147: 985-1003.
59. Sosinski B, Shulaev V, Dhingra A, Kalyanaraman A, Bumgarner R, Rokhsar D, Verde I, Velasco R, Abbott AG (2009) Rosaceaous genome sequencing: perspectives and progress. In: Folta KM, Gardiner SE (eds) Genetics and genomics of Rosaceae. Springer, New York, pp 601-615.
60. Sooriyapathirana SS, Khan A, Sebolt AM, Wang D, Bushakra JM, Lin-Wang K, Allan AC, Gardiner SE, Chagné D, Iezzoni AF (2010) QTL analysis and candidate gene mapping for skin and flesh color in sweet cherry fruit (Prunus avium L.). Tree Genet Genomes 6: 821-832.
61. Sun J, Chu Y-F, Wu X, Liu RH (2002) Antioxidant and antiproliferative activities of common fruits. J Agric Food Chem 50: 7449-7454.
62. Takos AM, Jaffe FW, Jacob SR, Bogs J, Robinson SP, Walker AR (2006) Light-induced expression of a MYB gene regulates anthocyanin biosynthesis in red apples. Plant Physiol 142: 1216-1232.
63. Tomás-Barberán FA, Gil MI, Cremin P, Waterhouse AL, Hess-Pierce B, Kader AA (2001) HPLC-DAD-ESIMS analysis of phenolic compounds in nectarines, peaches, and plums. J Agric Food Chem 49: 4748-4760.
64. van Blaricom LO, Senn TL (1967) Anthocyanin pigments in freestone peaches grown in the southeast. Proc Amer Soc Hort Sci 90: 541.
65. van de Weg WE, Voorips RE, Finkers HJ, Kodde LP, Jansen J, Bink M (2004) Pedigree genotyping: a new pedigree based approach of QTL identification and allele mining. Acta Hort 663: 45-50.
66. van Ooijen JW (2006) JoinMap® 4. 0, software for the calculation of genetic linkage maps in experimental populations. Kyazma BV, Wageningen, Netherlands.
67. Verde I, Bassil N, Scalabrin S, Gilmore B, Lawley CT, Gasic K, Micheletti D, Rosyara UR, Cattonaro F, Vendramin E, Main D, Aramini V, Blas AL, Mockler TC, Bryant DW, Wilhelm L, Troggio M, Sosinski B, Aranzana MJ, Arus P, Iezzoni A, Morgante M, Peace C (2012) Development and evaluation of a 9 K SNP array for peach by internationally coordinated SNP detection and validation in breeding germplasm. PLoS ONE 7: 1-13.
68. Vizzotto M, Cisneros-Zevallos L, Byrne DH, Ramming DW, Okie WR (2006) Total phenolic, carotenoid, and anthocyanin content and antioxidant activity of peach and plum genotypes. Acta Hort 713: 453-456.
69. Vizzotto M, Cisneros-Zevallos L, Byrne DH, Ramming DW, Okie WR (2007) Large variation found in the phytochemical and antioxidant activity of peach and plum germplasm. J Amer Soc Hort Sci 132: 334-340.
70. Voorrips RE (2002) MAPCHART: software for the graphical presentation of linkage maps and QTLs. J Hered 93: 77-78.
71. Walker AR, Lee E, Bogs J, McDavid DAJ, Thomas MR, Robinson SP (2007) White grapes arose through the mutation of two similar and adjacent regulatory genes. Plant J 49: 772-785.
72. Wang S, Basten CJ, Zeng ZB (2007) Windows QTL cartographer 25. Department of Statistics, North Carolina State University, Raleigh.
73. Wu XL, Prior RL (2005) Systematic identification and characterization of anthocyanins by HPLC-ESI-MS/MS in common foods in the United States: fruits and berries. J Agric Food Chem 53: 2589-2599.
74. Yamamoto T, Shimada T, Imai T, Yaegaki T, Haji T, Matsuta N, Yamaguchi M, Hyashi T (2001) Characterization of morphological traits based on a genetic linkage map in peach. Breeding Sci 51: 271-278.
75. Yang N, Reighard GL, Ritchie D, Okie WR, Gasic K (2012) Mapping quantitative trait loci associated with resistance to bacterial spot (Xanthomonas arboricola pv. pruni) in peach. Tree Genet Genomes. doi 10. 1007/s11295-012-0580-x.
76. Zeng ZB (1994) Precision mapping of quantitative trait loci. Genet 136: 1457-1468.
77. Zorrilla-Fontanesi Y, Cabeza A, Domi{dotless}nguez P, Medina JJ, Valpuesta V, Denoyes-Rothan S-SJF, Amaya I (2011) Quantitative trait loci and underlying candidate genes controlling agronomical and fruit quality traits in octoploid strawberry (Fragaria x ananassa). Theor Appl Genet 123: 755-778.
78. Zhu C, Gore M, Buckler ES, Yu J (2008) Status and prospects of association mapping in plants. The Plant Genome 1: 5-20.