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Tree Genetics & Genomes

, Volume 10, Issue 4, pp 1103–1112 | Cite as

Genetic diversity and parentage of Tunisian wild and cultivated grapevines (Vitis vinifera L.) as revealed by single nucleotide polymorphism (SNP) markers

  • Sana Ghaffari
  • Nejib Hasnaoui
  • Lalla Hasna Zinelabidine
  • Ali Ferchichi
  • José M. Martínez-Zapater
  • Javier IbáñezEmail author
Original Paper

Abstract

Based on 261 single nucleotide polymorphism (SNP) markers, we analyzed 57 grapevine genotypes, consisting of 29 wild grapevines (Vitis vinifera subsp. sylvestris) prospected from the northwest part of Tunisia and 28 cultivated accessions (V. vinifera subsp. vinifera) maintained in the repository of the Arid Land Institute of Medenine (Tunisia). Pair-wise multilocus comparison with the ICVV SNP database allowed the identification of 13 cultivated genotypes, including ten synonymous groups with known Mediterranean or international varieties, three cases of color sports, and two misnomers. Genotypic analysis showed a high level of genetic diversity for both wild and cultivated groups. Multivariate and structure analyses clearly differentiated wild from cultivated grapevines and showed high average posterior probabilities of assignment to their group of origin. The clustering results largely supported the perceived classification and reflect that most of the present Tunisian cultivated varieties do not derive directly from the local wild populations but could correspond to materials introduced from different locations during historical times. Parentage analysis allowed the determination of the genetic origin of four Tunisian cultivars, “Garai”, “Jerbi” (from Kerkennah), “Mahdoui”, and “Reine de Vignes faux”, and showed that “Heptakilo” and “Planta Fina”, two old and widely distributed varieties in the Mediterranean basin, had an important role in the origin of Tunisian grapevines. The present study demonstrates the efficacy of SNP makers for germplasm characterization and genetic studies in grapevine.

Keywords

Genetic structure Germplasm characterization Pedigree analysis SNP markers Sylvestris grapevine 

Notes

Acknowledgments

This work was funded by AECID (Agencia Española de CooperaciónInternacionalpara el Desarrollo, Spain) within the framework of projects A/023457/09 and A/031064/10.

We are indebted to many people for their various contributions to this research, especially to all the staff of forest services in northwest part of Tunisia for their support during collecting of wild grapevine material and Silvia Hernáiz for laboratory technical assistance.

Data Archiving Statement

All the SNP data of Tunisian grapevines used in this work will be made publicly available through DRYAD (http://datadryad.org/depositing). The data is also included in the main manuscript and in the associated supplemental data.

Supplementary material

11295_2014_746_MOESM1_ESM.xlsx (121 kb)
ESM 1 (XLSX 120 kb)
11295_2014_746_MOESM2_ESM.docx (21 kb)
ESM 2 (DOCX 21 kb)

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Copyright information

© Springer-Verlag Berlin Heidelberg 2014

Authors and Affiliations

  • Sana Ghaffari
    • 1
  • Nejib Hasnaoui
    • 2
  • Lalla Hasna Zinelabidine
    • 3
  • Ali Ferchichi
    • 1
  • José M. Martínez-Zapater
    • 3
  • Javier Ibáñez
    • 3
    Email author
  1. 1.Dry Land Farming and Oasis Cropping LaboratoryArid Land InstituteMedenineTunisia
  2. 2.Unité de Chimie Biologique IndustrielleGembloux Agro-Bio TechGemblouxBelgium
  3. 3.Instituto de Ciencias de la Vid y del Vino (CSIC, Universidad de La Rioja, Gobierno de La Rioja)Complejo Científico TecnológicoLogroñoSpain

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