An RGA-Derived SCAR Marker Linked to PLRV Resistance from Solanum tuberosum ssp. andigena

Abstract

A resistance gene analog (RGA)-derived sequence-characterized amplified region (SCAR) marker was successfully developed based on sequence homology with disease resistance genes of an AFLP molecular marker tightly linked to the Rl adg gene of Solanum tuberosum ssp. andigena. The new marker was designated as ‘RGASC850’ (RGA-derived SCAR) based on the size of the amplified fragment. ‘RGASC850’ could be efficiently used for monitoring introgression of Rl adg against backgrounds of improved gene pools with low likelihood of identifying false positives due to recombination. This SCAR proved to be highly predictive of Rl adg -based resistance, as it did not amplify potato leafroll virus (PLRV) resistance sources other than andigena, and thus would be useful in developing cultivars with complementary sources of resistance to PLRV. In addition, a cleaved amplified polymorphic sequence (CAPS) marker based on ‘RGASC850’ was developed capable of distinguishing genotypes carrying Rl adg . This CAPS marker would be useful for screening breeding populations derived from wide crosses, and confirming presence of the Rl adg gene in those parents amplifying the ‘RGASC850’ marker.

This is a preview of subscription content, access via your institution.

Fig. 1
Fig. 2

References

  1. Acquisition Distribution Unit (2008) Catalog of potato varieties. International Potato Center (CIP), Lima, Perú

    Google Scholar 

  2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410

    CAS  PubMed  Google Scholar 

  3. Bakker E, Prins P, Borm T, van der Vossen E, Uenk G, Arens M, de Boer J, van Eck H, Muskens M, Vossen J, van der Linden G, van Ham R, Klein-Lankhorst R, Visser R, Smant G, Bakker J, Goverse A (2011) A genome wide genetic map of NB-LRR disease resistance loci in potato. Theor Appl Genet 123:493–508

    PubMed Central  PubMed  Article  Google Scholar 

  4. Ballvora A, Ercolano MR, Weiss J, Meksem K, Bormann CA, Oberhagemann P, Salamini F, Gebhardt C (2002) The R1 gene for potato resistance to late blight (Phytophthora infestans) belongs to the leucine zipper/NBS/LRR class of plant resistance genes. Plant J 30(3):361–371

    CAS  PubMed  Article  Google Scholar 

  5. Ballvora A, Jocker A, Viehover P, Ishihara H, Paal J, Meksem K, Bruggmann R, Schoof H, Weisshaar B, Gerbhardt C (2007) Comparative sequence analysis of Solanum and Arabidopsis in a hot spot for pathogen resistance on potato chromosome V reveals a patchwork of conserved and rapidly evolving genome segments. BMC Genomics 8:112. doi:10.1186/1471- 2164-8-112

    PubMed Central  PubMed  Article  Google Scholar 

  6. Barker H, Waterhouse PM (1999) The development of resistance to luteoviruses mediated by host genes and pathogen-derived transgenes. In: Smith HG, Barker H (eds) The Luteoviridae. CABI Publishing, Wallingford, UK, pp 169–210

    Google Scholar 

  7. Barker H, Reavy B, Kumar A, Webster KD, Mayo MA (1992) Restricted virus multiplication in potatoes transformed with the coat protein gene of potato leafroll luteovirus: similarities with a type of host gene-mediated resistance. Ann Appl Biol 120:55–64

    Article  Google Scholar 

  8. Beekman AGB (1987) Breeding for resistance. In: de Bokx JA, van der Want JPH (eds) Viruses of potatoes and seed-potato production. Pudoc, Wageningen, The Neatherlands, pp 162–170

    Google Scholar 

  9. Bonierbale M, Amorós W, Landeo J (2003) Improved resistance and quality in potatoes for the tropics. In: Proceedings of the XXVI International Horticultural Congress August 11–17. Toronto, Canada. Acta Horticult 619:15–22

    Google Scholar 

  10. Brown CR (1979) General combining ability for PLRV resistance in andigena germplasm. Am Pot J 56:456

    Google Scholar 

  11. Brown CR, Thomas TE (1994) Resistance to potato leafroll virus derived from Solanum chacoense: characterization and inheritance. Euphytica 74:51–57

    Article  Google Scholar 

  12. Brown CR, Corsini D, Pavek J, Thomas PE (1997) Heritability of field resistance to potato leafroll virus in cultivated potato. Plant Breed 116:585–588

    Article  Google Scholar 

  13. Brugmans B, van der Hulst RGM, Visser RGF, Lindhout P, van Eck HJ (2003) A new versatile method for the successful conversion of AFLP markers into simple single locus markers. Nucleic Acids Res 31(10):e55

    PubMed Central  PubMed  Article  Google Scholar 

  14. Chavez R, Brown CR, Iwanaga M (1988) Transfer of resistance to PLRV titer buildup from Solanum etuberosum to a tuber-bearing Solanum gene pool. Theor Appl Genet 76:129–135

    CAS  PubMed  Article  Google Scholar 

  15. Chuquillanqui C, Jones RAC (1980) A rapid technique for assessing the resistance of families of potato seedlings to potato leaf roll virus. Potato Res 23:121–128

    Article  Google Scholar 

  16. CIP (2000) Molecular biology laboratory protocols: plant genotyping. In: Herrera MDR, Ghislain M, Zhang D (eds) Crop Improvement and Genetic Resources Department Training Manual, 3rd edn. International Potato Center (CIP), Lima, Peru

    Google Scholar 

  17. Davidson TMW (1973) Assessing resistance to leafroll in potato seedlings. Potato Res 16:99–108

    Article  Google Scholar 

  18. Dziewonska M, Was M (1994) Diploid genotype DW.84-1457 highly resistant to potato leafroll virus (PLRV). Potato Res 37:217–224

    Article  Google Scholar 

  19. Flis B, Hennig J, Strzelczyk-Zyta D, Gebhardt C, Marczewski W (2005) The Ry-fsto gene from Solanum stoloniferum for extreme resistant to potato virus Y maps to potato chromosome XII and is diagnosed by PCR marker GP122718 in PVY resistant potato cultivars. Mol Breed 15:95–101

    CAS  Article  Google Scholar 

  20. Gebhardt C, Bellin D, Henselewski H, Lehmann W, Schwarzfischer J, Valkonen JPT (2006) Marker-assisted combination of major genes for pathogen resistance in potato. Theor Appl Genet 112:1458–1464

    CAS  PubMed  Article  Google Scholar 

  21. Ghislain M, Zhang D, Herrera MR (1999) Molecular biology laboratory protocols: plant genotyping training manual, 2nd edn. International Potato Center (CIP), Lima

    Google Scholar 

  22. Hackett CA, Luo ZW (2003) TetraploidMap: construction of a linkage map in autotetraploid species. J Hered 94(4):358–359

    CAS  PubMed  Article  Google Scholar 

  23. Hämäläinen JH, Watanabe KN, Valkonen JPT, Arihara A, Plaisted RL, Pehu E, Miller L, Slack SA (1997) Mapping and marker-assisted selection for a gene for extreme resistance to potato virus Y. Theor Appl Genet 94:192–197

    Article  Google Scholar 

  24. Hawkes JG (1990) The potato evolution, biodiversity, and genetic resources. Belhaven Press, London (UK)

    Google Scholar 

  25. Huamán Z (1995) Técnicas citológicas para determinar el número cromosómico y la fertilidad de las papas. Guía de Investigación CIP 10. Centro Internacional de la Papa, Lima, p 18

    Google Scholar 

  26. Huarte MA, Butzonitch IP, Mendiburo AO (1990) Mejoramiento para resistencia a virus en el programa argentino de papa. In: Hidalgo OA, Rincón H (eds) Avances en el mejoramiento genético de la papa en los países del cono sur. Centro Internacional de la Papa, Lima, Perú, pp 85–93

    Google Scholar 

  27. Jansky S (2000) Breeding for disease resistance in potato. Plant Breed Rev 19:69–155

    Google Scholar 

  28. Kasai K, Morikawa Y, Sorri VA, Valkonen JPT, Gebhardt C, Watanabe KN (2000) Development of SCAR markers to the PVY resistance gene Ryadg based on a common feature of plant disease resistance genes. Genome 43:1–8

    CAS  PubMed  Google Scholar 

  29. Kelley KB, Whitworth JL, Novy RG (2009) Mapping of the potato leafroll virus resistance gene, Rlretb, from Solanum etuberosum identifies interchromosomal translocations among its E-genome chromosomes 4 and 9 relative to the A-genome of Solanum L. sect. Petota. Mol Breed 23:489–500

    CAS  Article  Google Scholar 

  30. Kelly JD (1995) Use of random amplified polymorphic DNA markers in breeding for major gene resistance to plant pathogen. HortSci 30:461–465

    Google Scholar 

  31. Larkin M, Blackshields G, Brown N, Chenna R, McGettigan P, McWilliam H et al (2007) Clustal W and Clustal X version 2.0. Bioinformatics 23(21):2947–2948

    CAS  PubMed  Article  Google Scholar 

  32. Leister D, Ballvora A, Salamini F, Gebhardt C (1996) A PCR-based approach for isolating pathogen resistance genes from potato with potential for wide application in plants. Nat Genet 14:421429

    Article  Google Scholar 

  33. Leonards-Schippers C, Gieffers W, Schafer-Pregl R, Ritter E, Knapp SJ, Salamini F, Gebhardt C (1994) Quantitative resistance to Phytophthora infestans in potato: a case study for QTL mapping in an allogamous plant species. Genetics 137(1):67–77, PMID:7914505

    CAS  PubMed  Google Scholar 

  34. Marczewski W, Flis B, Syller J, Schäfer-Pregl R, Gebhardt C (2001) A major quantitative trait locus for resistance to potato leafroll virus is located in a resistance hotspot of potato chromosome XI and is tightly linked to N-gene-like markers. Mol Plant-Microbe Interact 14(12):1420–1425

    CAS  PubMed  Article  Google Scholar 

  35. Marczewski W, Flis B, Syller J, Strzelczyk-Zyta D, Hennig J, Gebhardt C (2004) Two allelic or tightly linked genetic factors at the PLRV.4 locus on potato chromosome XI control resistance to potato leafroll virus accumulation. Theor Appl Genet 109:1604–1609

    CAS  PubMed  Article  Google Scholar 

  36. Meyers BC, Dickerman AW, Michelmore RW, Sivaramakrishnan S, Sobral B, Young ND (1999) Plant disease resistance genes encode members of an ancient and diverse protein family within the nucleotide-binding superfamily. Plant J 20:317–332

    CAS  PubMed  Article  Google Scholar 

  37. Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions by using segregating populations. Proc Nat Acad Sci USA 88:9828–9832

    CAS  PubMed  Article  Google Scholar 

  38. Mihovilovich E, Alarcón L, Pérez AL, Alvarado J, Arellano C, Bonierbale M (2007) High levels of heritable resistance to potato leafroll virus (PLRV) in Solanum tuberosum subsp. andigena. Crop Sci 47:1091–1103

    Article  Google Scholar 

  39. Muñoz FJ, Plaisted RL, Thurston HD (1975) Resistance to potato virus Y in Solanum tuberosum ssp. andigena. Am Pot J 52:107–115

    Article  Google Scholar 

  40. Novy RG, Gillen AM, Whitworth JL (2007) Characterization of the expression and inheritance of potato leafroll virus (PLRV) and potato virus Y (PVY) resistance in three generations of germplasm derivedfrom Solanum etuberosum. Theor Appl Genet 114:1161–1172

    CAS  PubMed  Article  Google Scholar 

  41. Oberhagemann P, Chatot-Balandras C, Schafer-Pregl R, Wegener D, Palomino C, Salamini F, Bonnel E, Gebhardt C (1999) A genetic analysis of quantitative resistance to late blight in potato: towards marker-assisted selection. Mol Breed 5:399–415

    CAS  Article  Google Scholar 

  42. Ortiz R (2001) The state of the use of potato genetic diversity. In: Cooper HD, Spillane C, Hodgkin T (eds) Broadening the genetic base of crop production. CABI Publishing, Wallingford, pp 181–200

    Chapter  Google Scholar 

  43. Rozen S, Skaletsky HJ (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, pp 365–386

    Google Scholar 

  44. Solomon-Blackburn RM, Barker H (1993) Resistance to potato, leafroll luteovirus can be greatly improved by combining two independent types of heritable resistance. Ann Appl Biol 122:329–336

    Article  Google Scholar 

  45. Solomon-Blackburn RM, Barker H (2001) Breeding virus-resistant potatoes (Solanum tuberosum): a review of traditional and molecular approaches. Heredity 86:17–35

    CAS  PubMed  Article  Google Scholar 

  46. Solomon-Blackburn RM, Mackay GR, Brown J (1994) An evaluation of seedling progeny tests for resistance to potato leafroll virus in potato. J Agric Sci 122:231–239

    Article  Google Scholar 

  47. Sorri VA, Watanabe KN, Valkonen JPT (1999) Predicted kinase-3a motif of a resistance gene analogue as a unique marker for virus resistance. Theor Appl Genet 99:164–170

    CAS  Article  Google Scholar 

  48. Syller J (1996) Potato leafroll virus (PLRV): its transmission and control. Integr Pest Manag Rev 1:217–227

    Article  Google Scholar 

  49. Taliansky M, Mayo MA, Barker H (2003) Potato leafroll virus: a classic pathogen shows some new tricks. Mol Plant Pathol 4(2):81–89

    CAS  PubMed  Article  Google Scholar 

  50. Tarn TR, Tai GCC (1983) Tuberosum x Tuberosum and Tuberosum x Andigena potato hybrids: comparison of families and parents, and breeding strategies for andigena potatoes in long day temperate environments. Theor Appl Genet 57:39–46

    Google Scholar 

  51. Timmerman-Vaughan GM, Frew TJ, Weerden NF (2000) Characterization and linkage mapping of R-gene analogous DNA sequences in pea (Pisum sativum L). Theor Appl Genet 101:241–247

    CAS  Article  Google Scholar 

  52. Trognitz BR, Bonierbale M, Landeo JA, Forbes G, Bradshaw JE, Mackay GR, Waugh R, Huarte MA Colon L (2001) Improving potato resistance to disease under the Global Initiative on Late Blight. In: Cooper HD, Spillane C, Hodgkin T (eds). Broadening the genetic base of crop production. CABI/FAO/IPGRI, 385–398

  53. Upadhya MD, Cabello R (1999) Interaction of maternal clones of potato (Solanum tuberosum) with pollinator clones of S. phureja for induced parthenogenesis. In: Impact on a changing world. Program Report 1997–98. International Potato Center, Lima, Perú, pp 179–184

    Google Scholar 

  54. Velásquez AC, Mihovilovich E, Bonierbale M (2007) Genetic characterization and mapping of major gene resistance to potato leafroll virus in Solanum tuberosum ssp. andigena. Theor Appl Genet 114(6):1051–1058

    PubMed  Article  Google Scholar 

  55. Watanabe KN, Orrillo M (1993) An alternative pretreatment method for mitotic chromosome observation in potatoes. Am Potato J 70:543–548

    CAS  Article  Google Scholar 

Download references

Acknowledgments

The authors thank Mr. Juan Huaccachi for his excellent technical assistance.

Author information

Affiliations

Authors

Corresponding author

Correspondence to Elisa Mihovilovich.

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Mihovilovich, E., Aponte, M., Lindqvist-Kreuze, H. et al. An RGA-Derived SCAR Marker Linked to PLRV Resistance from Solanum tuberosum ssp. andigena . Plant Mol Biol Rep 32, 117–128 (2014). https://doi.org/10.1007/s11105-013-0629-5

Download citation

Keywords

  • Solanum tuberosum ssp. andigena
  • PLRV resistance
  • Marker-assisted selection
  • SCAR
  • CAPS
  • Resistance gene analog