A comparative analysis of genetic diversity in Portuguese grape germplasm from ampelographic collections fit for quality wine production

Keywords: Vitis vinifera L., grapevine germplasm collections, synonymy, homonymy, molecular markers, RAPDs, ISSRs

Abstract

Grapevine cultivars diversity is vast and full of synonyms and homonyms. Up to few decades ago characterization of grapevine was based on morphological characters. In the last decades, molecular markers were developed and have been used as tools to study genetic diversity in a range of different plant species. Fifty-six Portuguese accessions representative of ‘Vinhos Verdes’ and ‘Douro’ Controlled Designations of Origin (DOC) were analysed through DNA fingerprints generated by Random Amplified Polymorphic DNA (RAPD) and Inter Simple Sequence Repeat (ISSR). The study aimed to compare the effectiveness of RAPD and ISSR molecular techniques in the detection of synonyms, homonyms and misnames. RAPD and ISSR analysis enabled the detection of 36 different band patterns, reducing in about 36% the initial material. Several accessions grown under different names, between and within collections, were confirmed as the same genotype, namely Gouveio/Verdelho, Sousão Douro/Vinhão and Arinto Oeste/Pedernã. Similarly, some homonyms/misnames were also identified, namely within Azal Tinto and Rabigato accessions. RAPD and ISSR markers revealed to be adequate molecular techniques for grapevine varieties fingerprinting with advantages over other molecular procedures, contributing for a good management of grapevine collections.

Downloads

Download data is not yet available.

References

Alifragkis A, Cunha J, Pereira J, Fevereiro P, Eiras Dias J, 2015. Identity, synonymies and homonymies of minor grapevine cultivars maintained in the Portuguese ampelographic collection. Ciência Téc Vitic 30: 43-52. http://www.ctv-jve-journal.org/articles/ctv/pdf/2015/01/ctv20153001p43.pdf.

Alleweldt G, Dettweiller E, 1994. The genetic resources of Vitis: world list of grapevine collections, 2nd ed. Geilweilerhof, Siebeldingen, Germany.

Balda P, Ibáñez J, Sancha JC, Martínez de Toda F, 2014. Characterization and identification of minority red grape varieties recovered in Rioja, Spain. Am J Enol Vitic 65: 148-152. http://dx.doi.org/10.5344/ajev.2013.13050

Boursiquot JM, This P, 1996. Les nouvelles techniques utilisées en ampélographie: informatique et marquage. J Int Sci Vigne Vin 610 (HS): 13-23.

Buhner-Zaharieva T, Moussaoui S, Lorente M, Andreu J, Núñez R, Ortiz J M, Gogorcena Y, 2010. Preservation and molecular characterization of ancient varieties in Spanish grapevine germplasm collections. Am J Enol Vitic 61: 557-562. http://dx.doi.org/10.5344/ajev.2010.09129

Cabello F, Moreno S, Gallego JG, Rodríguez I, 1999. Origen de los bancos de germoplasma de vid. In: Identificación molecular de germoplasma de vid; Ortiz JM (ed.). pp: 37-46. Colección Jornadas de Agronomía, Fundación Premio Arce, Madrid.

Castro I, Martín JP, Ortiz JM, Pinto-Carnide O, 2011. Varietal discrimination and genetic relationships of Vitis vinifera L. cultivars from two major Controlled Appellation (DOC) regions in Portugal. Sci Hort 127: 507-514. http://dx.doi.org/10.1016/j.scienta.2010.11.018

Castro I, Martín JP, Ortiz JM, Mota MT, Pinto-Carnide O, 2012. The Portuguese grapevine cultivar Amaral: synonymies, homonymies and misnames. Vitis 51: 61-63.

Cipriani G, Spadotto A, Jurman I, Di Gaspero G, Crespan M, Meneghetti S, Frare E, Vignani R, Cresti M, Morgante M et al., 2010. The SSR-based molecular profile of 1005 grapevine (Vitis vinifera L.) accessions uncovers new synonymy and parentages, and reveals a large admixture amongst varieties of different geographic origin. Theor Appl Genet 121: 1569-1585. http://dx.doi.org/10.1007/s00122-010-1411-9

De Lorenzis G, Squadrito M, Brancadoro L, Scienza A, 2015. Zibibbo Nero characterization, a red-wine grape revertant of Muscat of Alexandria. Mol Biotechnol 57: 265-274. http://dx.doi.org/10.1007/s12033-014-9820-7

Dhanorkar VM, Tamhankar SA, Patil SG, Rao VS, 2005. ISSR-PCR for assessment of genetic relationships among grape varieties cultivated in India. Vitis 44: 127-131.

DR, 2012. Ministerial Order 380/2012, of 22 November, that establishes grapevine varieties fit and authorized for wine production in Portugal. Diário da República (Portugal), 1ª série – Nº 226, 22/11/2012.

Ercisli S, Orhan E, Hizarci Y, Yildirim N, Agar G, 2008. Genetic diversity in grapevine germplasm resources in the Coruh Valley revealed by RAPD markers. Biochem Genet 46: 590-597. http://dx.doi.org/10.1007/s10528-008-9173-7

Ferreira V, Pinto-Carnide O, Mota T, Martín JP, Ortiz JM, Castro I, 2015. Identification of minority grapevine cultivars from Vinhos Verdes Portuguese DOC Region. Vitis 54: 53-58.

Ferreira V, Fernandes F, Pinto-Carnide O, Valentão P, Falco V, Martín JP, Ortiz JM, Arroyo-García R, Andrade PB, Castro I, 2016. Identification of Vitis vinifera L. grape berry skin color mutants and polyphenolic profile. Food Chem 194: 117-127. http://dx.doi.org/10.1016/j.foodchem.2015.07.142

Gogorcena Y, Arulsekar S, Dandekar AM, Parfitt DE, 1993. Molecular markers for grape characterization. Vitis 32: 183-185.

Herrera R, Cares V, Wilkinson MJ, Caligari PDS, 2002. Characterization of genetic variation between Vitis vinifera cultivars from central Chile using RAPD and inter simple sequence repeat markers. Euphytica 124: 139-145. http://dx.doi.org/10.1023/A:1015693721532

Ibáñez J, de Andrés M, Molino A, Borrego J, 2003. Genetic study of key Spanish grapevine varieties using microsatellite analysis. Am J Enol Vitic 54: 22-30.

Jing Z, Wang X, 2013. Genetic relationship between Chinese wild Vitis species and American and European cultivars based on ISSR markers. Biochem Syst Ecol 46: 120-126. http://dx.doi.org/10.1016/j.bse.2012.08.004

Karataş H, Ağaoğlu YS, 2008. Genetic diversity among Turkish local grape accessions (Vitis vinifera L.) using RAPD markers. Hereditas 145: 58-63. http://dx.doi.org/10.1111/j.0018-0661.2008.02011.x

Lacombe T, Boursiquot J-M, Laucou V, Di Vecchi-Staraz M, Péros JP, This P, 2013. Large-scale parentage analysis in an extended set of grapevine cultivars (Vitis vinifera L.). Theor Appl Genet 126: 401-414. http://dx.doi.org/10.1007/s00122-012-1988-2

Laucou V, Lacombe T, Dechesne F, Siret R, Bruno J-P, Dessup M, Dessup T, Ortigosa P, Parra P, Roux C et al., 2011. High throughput analysis of grape genetic diversity as a tool for germplasm collection management. Theor Appl Genet 122: 1233-1245. http://dx.doi.org/10.1007/s00122-010-1527-y

Lopes MS, Sefc KM, Eiras Dias JE, Steinkellner H, Laimer da Câmara Machado M, da Câmara Machado A, 1999. The use of microsatellites for germplasm management in a Portuguese grapevine collection. Theor Appl Genet 99: 733-739. http://dx.doi.org/10.1007/s001220051291

Mantel NA, 1967. The detection of disease clustering and a generalized regression approach. Cancer Res 27: 209-220.

Martín JP, Borrego J, Cabello F, Ortiz JM, 2003. Characterization of Spanish grapevine cultivar diversity using sequence-tagged microsatellite site markers. Genome 46: 10-18. http://dx.doi.org/10.1139/g02-098

Martín JP, Santiago JL, Pinto-Carnide O, Leal F, Martínez MC, Ortiz JM, 2006. Determination of relationships among autochthonous grapevine varieties (Vitis vinifera L.) in the Northwest of the Iberian Peninsula by using microsatellite markers. Genet Resour Crop Evol 53: 1255-1261. http://dx.doi.org/10.1007/s10722-005-5679-6

Maul E, Töpfer R, Carka F, Cornea V, Crespan M, Dallakyan M, De Andrés Domínguez T, De Lorenzis G, Dejeu L, Goryslavets S et al., 2015. Identification and characterization of grapevine genetic resources maintained in Eastern European Collections. Vitis 54: 5-12.

Moreno S, Gogorcena Y, Ortiz JM, 1995. The use of RAPD markers for identification of cultivated grapevine (Vitis vinifera L.). Sci Hort 62: 237-243. http://dx.doi.org/10.1016/0304-4238(95)00784-Q

Moreno S, Martín JP, Ortiz JM, 1998. Inter simple sequence repeats PCR for characterization of closely related grapevine germplasm. Euphytica 101: 117-125. http://dx.doi.org/10.1023/A:1018379805873

Mota MT, Silva M, 1986. Catálogo das Castas - Região Demarcada dos Vinhos Verdes. Ministério da Agricultura, Pescas e Alimentação. Instituto de Gestão e Estruturação Fundiária, Comissão de Viticultura da Região dos Vinhos Verdes, Lisboa, Portugal.

OIV, 2009. Liste des descripteurs OIV pour les variétés et espèces de Vitis, 2nde éd. Organisation Internationale de la Vigne et du Vin, Paris, France.

Ortiz JM, Martín JP, Borrego J, Chávez J, Rodríguez I, Muñoz G, Cabello F, 2004. Molecular and morphological characterization of a Vitis gene bank for the establishment of a base collection. Genet Resour Crop Evol 51: 403-409. http://dx.doi.org/10.1023/B:GRES.0000023451.09382.45

Pelsy F, Hocquigny S, Moncada X, Barbeau G, Forget D, Hinrichsen P, Merdinoglu D, 2010. An extensive study of the genetic diversity within seven French wine grape variety collections. Theor Appl Genet 120: 1219-1231. http://dx.doi.org/10.1007/s00122-009-1250-8

Pereira C, Sousa A, 1990. Catálogo das Castas - Região Demarcada do Douro. Ministério da Agricultura, Pescas e Alimentação. Instituto da Vinha e do Vinho, Direcção Regional de Agricultura de Trás-os-Montes, Centro de Estudos Vitivinícolas de Douro, Lisboa, Portugal.

Pinto-Carnide O, Martín JP, Leal F, Castro I, Guedes-Pinto H, Ortiz JM, 2003. Characterization of grapevine (Vitis vinifera L.) cultivars from northern Portugal using RAPD and microsatellite markers. Vitis 42: 23-25.

Prevost A, Wilkinson MJ, 1999. A new system of comparing PCR primers applied to ISSR fingerprinting of potato accessions. Theor Appl Genet 98: 107-112. http://dx.doi.org/10.1007/s001220051046

Rohlf FJ, 2005. NTSYS-pc: numerical taxonomy and multivariate analysis system, version 2.20. Exeter Software: Setauket, NY.

Roldán-Ruiz I, Dendauw J, Van Bockstaele E, Depicker A, De Loose M, 2000. AFLP markers reveal high polymorphic rates in ryegrasses (Lolium spp.). Mol Breed 6: 125-134. http://dx.doi.org/10.1023/A:1009680614564

Santana JC, Hidalgo E, de Lucas AI, Recio P, Ortiz JM, Martín JP, Yuste J, Arranz C, Rubio JA, 2008. Identification and relationships of accessions grown in the grapevine (Vitis vinifera L.) Germplasm Bank of Castilla y Léon (Spain) and the varieties authorized in the VQPRD areas of the region by SSR-marker analysis. Genet Resour Crop Evol 55: 573-583. http://dx.doi.org/10.1007/s10722-007-9261-2

Santiago JL, Boso S, Gago P, Alonso-Villaverde V, Martínez MC, 2007. Molecular and ampelographic characterization of Vitis vinifera L. 'Albariño', 'Savagnin Blanc' and 'Caíño Blanco' shows that they are different cultivars. Span J Agric Res 5: 333-340. http://dx.doi.org/10.5424/sjar/2007053-253

Seyedimoradi H, Talebi R, Hassani D, Kkarami F, 2012. Comparative genetic diversity analysis in Iranian local grapevine cultivars using ISSR and DAMD molecular markers. Environ Exp Biol 10: 125-132.

Sneath PHA, Sokal RR, 1973. Numerical Taxonomy. W.H Freeman and Company, San Francisco.

Sorkheh K, Shiran B, Gradziel TM, Epperson BK, Martinez-Gomez P, Asadi E, 2007. Amplified fragment length polymorphism as a tool for molecular characterization of almond germplasm: genetic diversity among cultivated genotypes and related wild species of almond, and its relationships with agronomic traits. Euphytica 156: 327-344. http://dx.doi.org/10.1007/s10681-007-9382-x

Tamhankar SA, Argade NC, More MN, Dhanorkar VM, Patil SG, Rao VS, Karibasappa GS, Agrawal DC, 2008. DNA profiling of the grape varieties grown in India using ISSR markers. Acta Hort 785: 147-152. http://dx.doi.org/10.17660/ActaHortic.2008.785.17

Truel P, Rennes C, Domergue P, 1980. Identification in collections of grapevines. Proc III Int Symp Grape Breed, Davis CA (USA), Jun 15-18. pp: 78-86.

Ulanovsky S, Gogorcena Y, Martínez de Toda F, Ortiz JM, 2002. Use of molecular markers in detection of synonymies and homonymies in grapevines (Vitis vinifera L.). Sci Hort 92: 241-254. http://dx.doi.org/10.1016/S0304-4238(01)00291-6

Veloso AM, Almadanim MC, Baleiras-Couto M, Pereira HS, Carneiro LC, Fevereiro P, Eiras-Dias J, 2010. Microsatellite database of grapevine (Vitis vinifera l.) cultivars used for wine production in Portugal. Ciência Téc Vitic 25: 53-61.

Vidal JR, Moreno S, Gogorcena Y, Masa A, Ortiz JM, 1999. On the genetic relationships and origin of six grapevine cultivars of Galicia (Spain) using RAPD markers. Am J Enol Vitic 50: 69-75.

Zeinali R, Rahmani F, Abaspour N, Baneh HD, 2012. Molecular and morphological diversity among grapevine (Vitis vinifera L.) cultivars in Iran. Intl J Agric: Res & Rev 2: 735-743.

Zietkiewicz E, Rafalski JA, Labuda D, 1994. Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain-reaction amplification. Genomics 20: 176-183. http://dx.doi.org/10.1006/geno.1994.1151

Published
2017-01-20
How to Cite
Castro, I., Pinto-Carnide, O., Ortiz, J. M., Ferreira, V., & Martín, J. P. (2017). A comparative analysis of genetic diversity in Portuguese grape germplasm from ampelographic collections fit for quality wine production. Spanish Journal of Agricultural Research, 14(4), e0712. https://doi.org/10.5424/sjar/2016144-8852
Section
Plant breeding, genetics and genetic resources