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Theoretical and Applied Genetics

, Volume 118, Issue 6, pp 1143–1155 | Cite as

Mapping QTLs for developmental traits in raspberry from bud break to ripe fruit

  • Julie Graham
  • Christine A. Hackett
  • Kay Smith
  • Mary Woodhead
  • Ingo Hein
  • Susan McCallum
Original Paper

Abstract

Protected cropping systems have been adopted by the UK industry to improve fruit quality and extend the current season. Further manipulation of season, alongside consideration of climate change scenarios, requires an understanding of the processes controlling fruit ripening. Ripening stages were scored from May to July across different years and environments from a raspberry mapping population. Here the interest was in identifying QTLs for the overall ripening process as well as for the time to reach each stage, and principal coordinate analysis was used to summarise the ripening process. Linear interpolation was also used to estimate the time (in days) taken for each plot to reach each of the stages assessed. QTLs were identified across four chromosomes for ripening and the time to reach each stage. A MADS-box gene, Gene H and several raspberry ESTs were associated with the QTLs and markers associated with plant height have also been identified, paving the way for marker assisted selection in Rubus idaeus.

Keywords

Cane Ripening Stage Ripening Process Open Flower Green Fruit 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgments

This work was funded by The Scottish Government and HortLINK. The authors thank the SCRI sequencing and genotyping service and John Bradshaw for critical reading of the manuscript.

References

  1. Allan AC, Hellens RP, Laing WA (2008) MYB transcription factors that colour our fruit. Trends Plant Sci 13:99–102PubMedCrossRefGoogle Scholar
  2. Atkinson CJ, Taylor L, Taylor JM, Lucas AS (1998) Temperature and irrigation effects on the cropping, development and quality of Cox’s Orange Pippin and Queen Cox apples. Sci Hort 75:59–81CrossRefGoogle Scholar
  3. Bielenberg DG, Wang Y, Li ZG, Zhebentyayeva T, Fan SH, Reighard GL, Scorza R, Abbott AG (2008) Sequencing and annotation of the evergrowing locus in peach [Prunus persica (L.) Batsch] reveals a cluster of six MADS-box transcription factors as candidate genes for regulation of terminal bud formation. Tree Genet Genomes 4:495–507CrossRefGoogle Scholar
  4. Colombo M, Masiero S, Vanzulli S, Lardelli P, Kater MM, Colombo L (2008) AGL23, a type I MADS-box gene that controls female gametophyte and embryo development in Arabidopsis. Plant J 54:1037–1048CrossRefGoogle Scholar
  5. Danilevskaya ON, Meng X, Selinger DA, Deschamps S, Hermon P, Vansant G, Gupta R, Ananiev EV, Muszynski MG (2008) Involvement of the MADS-Box gene ZMM4 in floral induction and inflorescence development in maize. Plant Physiol 147:2054–2069PubMedCrossRefGoogle Scholar
  6. Darnell RL, Cantliffe DJ, Kirschbum DS, Chandler CK (2003) The physiology of flowering in strawberry. Hort Rev 28:349–352Google Scholar
  7. 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 49:414–427PubMedCrossRefGoogle Scholar
  8. Genstat (2007) Genstat for Windows Release 10.2. VSN International Ltd, Hemel Hempstead, HertfordshireGoogle Scholar
  9. Graham J, Squire GR, Marshall B, Harrison RE (1997) Spatially-dependent genetic diversity within and between colonies of wild raspberry Rubus idaeus detected using RAPD markers. Mol Ecol 6:272–281CrossRefGoogle Scholar
  10. Graham J, Marshall B, Squire G (2003) Genetic differentiation over a spatial environmental gradient in wild Rubus idaeus populations. New Phytol 157:667–675CrossRefGoogle Scholar
  11. Graham J, Smith K, MacKenzie K, Jorgenson L, Hackett C, Powell W (2004) The construction of a genetic linkage map of red raspberry (Rubus idaeus subsp. idaeus) based on AFLPs, genomic-SSR and EST-SSR markers. Theor Appl Genet 109:740–749PubMedCrossRefGoogle Scholar
  12. Graham J, Smith K, Tierney I, MacKenzie K, Hackett CA (2006) Mapping gene H controlling cane pubescence in raspberry and its association with resistance to cane botrytis and spur blight, rust and cane spot. Theor Appl Genet 112:818–831PubMedCrossRefGoogle Scholar
  13. Hein I, Williamson S, Russell J, Powell W (2005) Isolation of high molecular weight DNA suitable for BAC library construction from woody perennial soft-fruit species. BioTechniques 38:69–71PubMedCrossRefGoogle Scholar
  14. Horvath DP, Anderson JV, Chao WS, Foley ME (2003) Knowing when to grow: signals regulating bud dormancy. Trends Plant Sci 8:534–540PubMedCrossRefGoogle Scholar
  15. Jack T (2004) Molecular and genetic mechanisms of floral control. Plant Cell 16:S1–S17PubMedCrossRefGoogle Scholar
  16. Jennings DL (1987) Raspberries and blackberries: their breeding diseases and growth. Academic Press, LondonGoogle Scholar
  17. Jin H, Martin C (1999) Multifunctionality and diversity within the plant MYB-gene family. Plant Mol Biol 41:577–585PubMedCrossRefGoogle Scholar
  18. Kassim A, Poette J, Paterson A, Zait D, McCallum S, Woodhead M, Smith K, Hackett C, Graham J (2009) Environmental and seasonal influences on red raspberry anthocyanin antioxidant contents and identification of QTL. Mol Nut Food Res 53. doi: 10.1002/mnfr.200800174
  19. Klejnot J, Lin C (2004) A CONSTANS experience brought to light. Science 303:965–966PubMedCrossRefGoogle Scholar
  20. Koes R, Verweij W, Quattrocchio F (2005) Flavonoids: a colourful model for the regulation and evolution of biochemical pathways. Trends Plant Sci 10:236–242PubMedCrossRefGoogle Scholar
  21. Lang GA (1987) Dormancy a new universal terminology. HortScience 22:817–820Google Scholar
  22. Lee JH, Yoo SJ, Park SH, Hwang I, Lee JS, Ahn JH (2007) Role of SVP in the control of flowering time by ambient temperature in Arabidopsis. Genes Dev 21:397–402PubMedCrossRefGoogle Scholar
  23. Måge F (1975) Dormancy in buds of red raspberry. Meldinger fra Norges Landbruskshøgskole 54:1–25Google Scholar
  24. Manning K, Tor M, Poole M, Hong Y, Thompson AJ, King GJ, Giovannoni JJ, Seymour GB (2006) A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening. Nature Genet 38:948–952PubMedCrossRefGoogle Scholar
  25. Marshall B, Harrison RE, Graham J, McNicol JW, Wright G, Squire G (2001) Spatial trends of phenotypic diversity between colonies of wild raspberry Rubus idaeus. New Phytol 151:671–682CrossRefGoogle Scholar
  26. Mazzitelli L, Hancock RD, Haupt S, Walker PG, Pont SDA, McNicol J, Cardle L, Morris J, Viola R, Brennan R, Hedley PE, Taylor MA (2007) Co-ordinated gene expression during phases of dormancy release in raspberry (Rubus idaeus L.) buds. J Exp Bot 58:1035–1045PubMedCrossRefGoogle Scholar
  27. Olsen JE (2003) Molecular and physiological mechanisms of bud dormancy regulation. Acta Hort 618:437–453Google Scholar
  28. Peitersen AK (1921) Blackberries of New England-genetic status of the plants. Bull Vermont Agricult Exper St 218:1–34Google Scholar
  29. Ruperti B, Cattivelli L, Pagni S, Ramina A (2002) Ethylene-responsive genes are differentially regulated during abscission, organ senescence and wounding in peach (Prunus persica). J Exp Bot 53:429–437PubMedCrossRefGoogle Scholar
  30. Serce S, Hancock JF (2005) The temperature and photoperiod of regulation of flowering and runnering in the strawberries Fragaria chiloensis, F. virginiana, and F. x ananassa. Sci Hort 103:167–177CrossRefGoogle Scholar
  31. Simpson GG, Dean C (2002) Arabidopsis, the rosetta stone of flowering time? Science 296:285–289PubMedCrossRefGoogle Scholar
  32. Soltis DE, Ma H, Frohlich MW, Soltis PS, Albert VA, Oppenheimer DG, Altman NS, dePamphilis C, Leebens-Mack J (2007) The floral genome: an evolutionary history of gene duplication and shifting patterns of gene expression. Trends Plant Sci 12:358–367PubMedCrossRefGoogle Scholar
  33. Stracke R, Werber M, Weisshaar B (2001) The R2R3-MYB gene family in Arabidopsis thaliana. Curr Opin Plant Biol 4:447–456PubMedCrossRefGoogle Scholar
  34. Tan FC, Swain SM (2006) Genetics of flower initiation and development in annual and perennial plants. Physiol Plant 128:8–17CrossRefGoogle Scholar
  35. Tani E, Polidoros AN, Tsaftaris AS (2007) Characterization and expression analysis of FRUITFUL and SHATTERPROOF-like genes from peach (Prunus persica) and their role in split-pit formation. Tree Physiol 27:649–659PubMedGoogle Scholar
  36. Tapia-Lopez R, Garcia-Ponce B, Dubrovsky JG, Garay-Arroyo A, Pérez-Ruíz RV, Kim S, Acevedo F, Pelaz S, Alvarez-Buylla ER (2008) An AGAMOUS-related MADS-box gene, XAL1 (AGL12), regulates root meristem cell proliferation and flowering transition in Arabidopsis. Plant Physiol 146:1182–1192PubMedCrossRefGoogle Scholar
  37. Tukey JW (1977) Exploratory data analysis. Addison–Wesley, ReadingGoogle Scholar
  38. Unte US, Sorensen AM, Pesaresi P, Gandikota M, Leister D, Saedler H, Huijser P (2003) SPL8, an SBP-box gene that affects pollen sac development in Arabidopsis. Plant Cell 15:1009–1019PubMedCrossRefGoogle Scholar
  39. Van Ooijen JW (2004) MapQTL® 5, software for the mapping of quantitative trait loci in experimental populations. Kyazma B. V., Wageningen, NetherlandsGoogle Scholar
  40. Van Ooijen JW, Voorrips RE (2001) JoinMap® 3.0, software for the calculation of genetic linkage maps. Plant Research International, Wageningen, NetherlandsGoogle Scholar
  41. Verelst W, Twell D, de Folter S, Immink R, Saedler H, Münster T (2007) MADS-complexes regulate transcriptome dynamics during pollen maturation. Genome Biol 8:R249PubMedCrossRefGoogle Scholar
  42. Vrebalov J, Ruezinsky D, Padmanabhan V, White R, Medrano D, Drake R, Schuch W, Giovannoni J (2002) A MADS-box gene necessary for fruit ripening at the tomato ripening-inhibitor (Rin) locus. Science 296:343–346PubMedCrossRefGoogle Scholar
  43. Wang XL, Chen YP, Yu DY (2008) Expression of the MADS-box gene GmAGL15 in seed development of soybean. Acta Agronomica Sinica 34:330–332Google Scholar
  44. Weller JI, Wiggans GR, VanRaden PM, Ron M (1996) Application of a canonical transformation to detection of quantitative trait loci with the aid of genetic markers in a multi-trait experiment. Theor Appl Geneti 92:998–1002CrossRefGoogle Scholar
  45. Williamson B, Jennings DL (1992) Resistance to cane and foliar diseases in red raspberry (Rubus idaeus) and related species. Euphytica 63:59–70CrossRefGoogle Scholar
  46. Woodhead M, Russell J, Squirrell J, Hollingsworth M, Cardle L, Ramsay L, Gibby M, Powell W (2003) Development of EST-SSRs from the alpine lady-fern, Athyrium distentifolium. Mol Ecol Notes 3:287–290CrossRefGoogle Scholar
  47. Woodhead M, Smith K, Williamson S, Cardle L, Mazzitelli L, Graham J (2008) Identification, characterisation and mapping of simple sequence repeat (SSR) markers from raspberry root and bud ESTs. Mol Breeding 22:555–563CrossRefGoogle Scholar

Copyright information

© Springer-Verlag 2009

Authors and Affiliations

  • Julie Graham
    • 1
  • Christine A. Hackett
    • 2
  • Kay Smith
    • 1
  • Mary Woodhead
    • 1
  • Ingo Hein
    • 1
  • Susan McCallum
    • 1
  1. 1.SCRIDundeeScotland, UK
  2. 2.BioSSDundeeScotland, UK

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