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Microsatellite high-resolution melting (SSR-HRM) analysis for genotyping and molecular characterization of an Olea europaea germplasm collection

Published online by Cambridge University Press:  31 January 2014

Aliki Xanthopoulou ,
Ioannis Ganopoulos ,
Georgios Koubouris ,
Athanasios Tsaftaris ,
Chrysa Sergendani ,
Apostolos Kalivas  and
Panagiotis Madesis
Aliki Xanthopoulou
Affiliation:
Institute of Applied Biosciences, CERTH, Thermi, Thessaloniki570 01, Greece Department of Genetics and Plant Breeding, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki54 124, Greece
Ioannis Ganopoulos
Affiliation:
Institute of Applied Biosciences, CERTH, Thermi, Thessaloniki570 01, Greece Department of Genetics and Plant Breeding, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki54 124, Greece
Georgios Koubouris
Affiliation:
Institute of Olive Tree and Subtropical Plants of Chania, Hellenic Agricultural Organization “Demeter”, Agrokipio73100, Chania, Greece
Athanasios Tsaftaris
Affiliation:
Institute of Applied Biosciences, CERTH, Thermi, Thessaloniki570 01, Greece Department of Genetics and Plant Breeding, School of Agriculture, Aristotle University of Thessaloniki, Thessaloniki54 124, Greece
Chrysa Sergendani
Affiliation:
Institute of Olive Tree and Subtropical Plants of Chania, Hellenic Agricultural Organization “Demeter”, Agrokipio73100, Chania, Greece
Apostolos Kalivas*
Affiliation:
Cotton and Industrial Plants Institute, Hellenic Agricultural Organization “Demeter”, Thermi, Thessaloniki57001, Greece
Panagiotis Madesis*
Affiliation:
Institute of Applied Biosciences, CERTH, Thermi, Thessaloniki570 01, Greece
*
* Corresponding authors. E-mails: [email protected]; [email protected]
* Corresponding authors. E-mails: [email protected]; [email protected]
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Abstract

Olea europaea L. has been cultivated in the Mediterranean region for thousands of years and is of major economic importance. The origin of olive cultivars remains as complex to trace as their identification. Thus, their molecular characterization and discrimination will enable olive germplasm management. In addition, it would be a useful tool for authentication of olive products. High-resolution melting (HRM) analysis, coupled with five microsatellite markers, was integrated to facilitate molecular identification and characterization of main O. europaea cultivars collected from the National Olive Tree Germplasm Collection established in Chania, Greece. The five microsatellite loci used were highly informative and generated a unique melting curve profile for each of the 47 cultivars and for each microsatellite tested. In particular, three microsatellite markers (DCA03, DCA09 and DCA17), which generated 29 HRM profiles, were sufficient to genotype all the olive cultivars studied, highlighting their potential use for cultivar identification. Furthermore, this assay provided a flexible, cost-effective and closed-tube microsatellite genotyping method well suited for molecular characterization of olive cultivars.

Keywords

authenticationGene Bank collectiongenotypingoliveSSR-HRM analysis
Type
Research Article
Information
Plant Genetic Resources , Volume 12 , Issue 3 , December 2014 , pp. 273 - 277
Copyright
Copyright © NIAB 2014 

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References

Barranco, D, Cimato, A, Fiorino, P, Rallo, L, Touzani, A, Castaneda, C, Serafini, F and Trujillo, I (2000) Catalogo Mundial de las Variedades de Olivo. Consejo Oleícola Internacional. Madrid: L.R. Cuéllar, p. 360.Google Scholar
Cipriani, G, Marrazzo, MT, Marconi, R, Cimato, A and Testolin, R (2002) Microsatellite markers isolated in olive (O. europaea L.) are suitable for individual fingerprinting and reveal polymorphism within ancient cultivars. Theoretical and Applied Genetics 104: 223–228.CrossRefGoogle Scholar
Distefano, G, Caruso, M, La Malfa, S, Gentile, A and Wu, S-B (2012) High resolution melting analysis is a more sensitive and effective alternative to gel-based platforms in analysis of SSR: an example in Citrus . PloS one 7: e44202.Google Scholar
Donini, P, Sarri, V, Baldoni, L, Porceddu, A, Cultrera, NGM, Contento, A, Frediani, M, Belaj, A, Trujillo, I and Cionini, PG (2006) Microsatellite markers are powerful tools for discriminating among olive cultivars and assigning them to geographically defined populations. Genome 49: 1606–1615.Google Scholar
Evans, KM, Patocchi, A, Rezzonico, F, Mathis, F, Durel, CE, Fernández-Fernández, F, Boudichevskaia, A, Dunemann, F, Stankiewicz-Kosyl, M and Gianfranceschi, L (2011) Genotyping of pedigreed apple breeding material with a genome-covering set of SSRs: trueness-to-type of cultivars and their parentages. Molecular Breeding 28: 535–547.Google Scholar
Ganopoulos, I, Argiriou, A and Tsaftaris, A (2011a) Microsatellite high resolution melting (SSR-HRM) analysis for authenticity testing of protected designation of origin (PDO) sweet cherry products. Food Control 22: 532–541.Google Scholar
Ganopoulos, IV, Kazantzis, K, Chatzicharisis, I, Karayiannis, I and Tsaftaris, AS (2011b) Genetic diversity, structure and fruit trait associations in Greek sweet cherry cultivars using microsatellite based (SSR/ISSR) and morpho-physiological markers. Euphytica 181: 237–251.CrossRefGoogle Scholar
Marra, FP, Caruso, T, Costa, F, Di Vaio, C, Mafrica, R and Marchese, A (2013) Genetic relationships, structure and parentage simulation among the olive tree (Olea europaea L. subsp. europaea) cultivated in Southern Italy revealed by SSR markers. Tree Genetics & Genomes: 1–13.Google Scholar
Reed, GH and Wittwer, CT (2004) Sensitivity and specificity of single-nucleotide polymorphism scanning by high-resolution melting analysis. Clinical Chemistry 50: 1748–1754.Google Scholar
Roubos, K, Moustakas, M and Aravanopoulos, FA (2011) Molecular identification of Greek olive (Olea europaea) cultivars based on microsatellite loci. Genetics and Molecular Research 9: 1865–1876.CrossRefGoogle Scholar
Sefc, KM, Lopes, MS, Mendonca, D, Santos, MRD, Machado, LM and Machado, ADC (2000) Identification of microsatellite loci in olive (Olea europaea) and their characterization in Italian and Iberian olive trees. Molecular Ecology 9: 1171–1173.Google Scholar
Štambuk, S, Sutlović, D, Bakarić, P, Petričević, S and Andelinović, Š (2007) Forensic botany: potential usefulness of microsatellite-based genotyping of Croatian olive (Olea europaea L.) in forensic casework. Croatian Medical Journal 48: 556–562.Google ScholarPubMed
Therios, I (2009) Olives. In: Crop Production Science in Horticulture Series No. 18. Wallingford: CABI Publishing, p. 336.Google Scholar
Xanthopoulou, A, Ganopoulos, I, Tsaballa, A, Nianiou-Obeidat, I, Kalivas, A, Tsaftaris, A and Madesis, P (2013) Summer squash identification by high-resolution-melting (HRM) analysis using gene-based EST-SSR molecular markers. Plant Molecular Biology Reporter: 1–11.Google Scholar
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