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. 2019 Sep;25(5):1211-1223.
doi: 10.1007/s12298-019-00690-4. Epub 2019 Aug 10.

Conserved DNA-derived polymorphism, new markers for genetic diversity analysis of Tunisian Pistacia vera L

Meriem Aouadi  1 , Karim Guenni  1 , Donia Abdallah  1 , Marwa Louati  1 , Khaled Chatti  2 , Ghada Baraket  1 , Amel Salhi Hannachi  1
Affiliations

Conserved DNA-derived polymorphism, new markers for genetic diversity analysis of Tunisian Pistacia vera L

Meriem Aouadi et al. Physiol Mol Biol Plants. 2019 Sep.

Abstract

Pistachio trees (Pistacia vera L.) have been cultivated in Tunisia for decades and the plantation was extended mostly in the center of the country contributing to the economic growth of marginalized areas. Herein we used conserved DNA derived polymorphism (CDDP) technique, which target specifically conserved sequences of plant functional genes, to assess the genetic diversity and construct genetic relationships among 65 Tunisian pistachio trees. A set of nine primers were used and 157 CDDP markers were revealed with an average of 17.44 showing a high degree of polymorphism (99.37%). The average of polymorphism information content of CDDP markers was of 0.86, which indicates the efficiency of CDDP primers in the estimation of genetic diversity between pistachios. UPGMA dendrogram and the principal component analysis showed four clusters of analyzed pistachios trees. Our results showed that the genetic structure depends on: (1) the gene exchanges between groups, (2) the geographical origin and (3) the sex of the tree. The same result was revealed by the Bayesian analysis implemented in STRUCTURE at K = 4, in which the pistachio genotypes of El Guettar, Kasserine and Sfax were assigned with more than 80% of probability. Our results prove polymorphism and efficiency of CDDP markers in the characterization and genetic diversity analysis of P. vera L. genotypes to define conservation strategy.

Keywords: CDDP markers; Genetic diversity; Pistacia vera L.; Structure analysis.

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Conflict of interest statement

Conflict of interestThe authors declare that they have no conflict of interest.

Figures

Fig. 1
Fig. 1
Geographical distribution of the analyzed pistachio cultivars in Tunisia
Fig. 2
Fig. 2
Dendrogram obtained from 65 genotypes of Pistaciavera L. based on UPGMA analysis using the similarity matrix. The colors of the branches correspond to the four pistachio groups studied (Red: Kasserine Group; Blue: Gabès Group; Green: Sfax Group and Black: El Guettar Group) (color figure online)
Fig. 3
Fig. 3
Principal component scatter plot with colored clusters of pistachio cultivars
Fig. 4
Fig. 4
K values based on ten independent runs and K ranging from 1 to 8 based on 65 genotypes of P. vera using CDDP markers
Fig. 5
Fig. 5
Genetic clustering obtained from the STRUCTURE analysis (N = 65). All the varieties was divided into K colors correspond to the four pistachio groups studied. The colors of the groups correspond to the colors chosen in previous figures (Figs. 2, 3)
See this image and copyright information in PMC

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