Genetic structure and diversity analysis in Vitis vinifera L. cultivars from Iran using SSR markers

Doulati-Baneh, Hamed; Mohammadi, Seyed Abolghasem; Labra, Massimo

doi:10.1016/j.scienta.2013.05.029

Cited by 33 publications

(25 citation statements)

References 29 publications

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“…Microsatellites (SSR fingerprinting) are a very useful tool for detection of identical genotypes in germplasm collections, as well as for detection and characterization of grape cultivars within the scope of genetic diversity investigations. [30] Characterization of plant materials by using ampelographic methods may cause wrong interpretations, but SSR (DNA-based) markers, which are widely preferred in recent years, produce more trustworthy results for genetic detection [31] due to the fact that the results obtained from the markers are not dependent on environmental factors. In brief, the relevance of Vitis SSR markers for genetic mapping, cultivar identification, parentage analysis, as well as genetic origin and diversity of the grape cultivars in germplasm collections, has been addressed.…”

Section: Genetic Analysismentioning

confidence: 99%

Genetic characterization of autochthonous grapevine cultivars from Eastern Turkey by simple sequence repeats (SSRs)

Eyduran

Erċışlı

Akın

et al. 2015

Biotechnology & Biotechnological Equipment

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In this research, two well-recognized standard grape cultivars, Cabernet Sauvignon and Merlot, together with eight historical autochthonous grapevine cultivars from Eastern Anatolia in Turkey, were genetically characterized by using 12 pairs of simple sequence repeat (SSR) primers in order to evaluate their genetic diversity and relatedness. All of the used SSR primers produced successful amplifications and revealed DNA polymorphisms, which were subsequently utilized to evaluate the genetic relatedness of the grapevine cultivars. Allele richness was implied by the identification of 69 alleles in 8 autochthonous cultivars with a mean value of 5.75 alleles per locus. The average expected heterozygosity and observed heterozygosity were found to be 0.749 and 0.739, respectively. Taking into account the generated alleles, the highest number was recorded in VVC2C3 and VVS2 loci (nine and eight alleles per locus, respectively), whereas the lowest number was recorded in VrZAG83 (three alleles per locus). Two main clusters were produced by using the unweighted pair-group method with arithmetic mean dendrogram constructed on the basis of the SSR data. Only Cabernet Sauvignon and Merlot cultivars were included in the first cluster. The second cluster involved the rest of the autochthonous cultivars. The results obtained during the study illustrated clearly that SSR markers have verified to be an effective tool for fingerprinting grapevine cultivars and carrying out grapevine biodiversity studies. The obtained data are also meaningful references for grapevine domestication.

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Section: Genetic Analysismentioning

confidence: 99%

Genetic characterization of autochthonous grapevine cultivars from Eastern Turkey by simple sequence repeats (SSRs)

Eyduran

Erċışlı

Akın

et al. 2015

Biotechnology & Biotechnological Equipment

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“…It has a black skin, is medium sized, and is a late‐ripening cultivar with hermaphrodite flowers and seeded berries. Also, it is important economically due to the high‐quality fruits and longer post‐harvest life . To understand the effectiveness of potassium in improving the fruit quality, we evaluated the biochemical composition, antioxidant activity, and peroxidase and polyphenoloxidase enzyme activities in the berries of the vines sprayed with various concentrations of potassium sulfate (K 2 SO 4 ).…”

Section: Introductionmentioning

confidence: 99%

Biochemical composition and antioxidant activity affected by spraying potassium sulfate in black grape (Vitis vinifera L. cv. Rasha)

Zareei¹,

Javadi

Aryal

2018

J Sci Food Agric

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“…) and Vitis (Doulati‐Baneh et al . ) indicate that microsatellite markers are still extensively being developed as a molecular tool for various purposes.…”

Section: Introductionmentioning

confidence: 99%

“…Additionally, being multi-allelic, they are powerful for parentage analysis and haplotyping, particularly for mapping in polyploids as they allow detecting multiple alleles at the same locus on all homologous chromosomes . Despite the advent of SNP markers, recent studies in various plant and animal genera, for instance, Cucurbita (Barzegar et al 2013), Euphydryas (Smee et al 2013), Lilium (Yuan et al 2013), Medicago (Zitouna et al 2013), Pinus (Iwaiz-umi et al 2013), Portunus (Guo et al 2013), Scatophagus , Triticum (Ansari et al 2013) and Vitis (Doulati-Baneh et al 2013) indicate that microsatellite markers are still extensively being developed as a molecular tool for various purposes.…”

Section: Introductionmentioning

confidence: 99%

Efficient development of highly polymorphic microsatellite markers based on polymorphic repeats in transcriptome sequences of multiple individuals

Vukosavljev

Esselink

Westende

et al. 2014

Molecular Ecology Resources

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The first hurdle in developing microsatellite markers, cloning, has been overcome by next-generation sequencing. The second hurdle is testing to differentiate polymorphic from nonpolymorphic loci. The third hurdle, somewhat hidden, is that only polymorphic markers with a large effective number of alleles are sufficiently informative to be deployed in multiple studies. Both steps are laborious and still performed manually. We have developed a strategy in which we first screen reads from multiple genotypes for repeats that show the most length variants, and only these are subsequently developed into markers. We validated our strategy in tetraploid garden rose using Illumina paired-end transcriptome sequences of 11 roses. Of 48 tested two markers failed to amplify, but all others were polymorphic. Ten loci amplified more than one locus, indicating duplicated genes or gene families. Completely avoiding duplicated loci will be difficult because the range of numbers of predicted alleles of highly polymorphic single- and multilocus markers largely overlapped. Of the remainder, half were replicate markers (i.e. multiple primer pairs for one locus), indicating the difficulty of correctly filtering short reads containing repeat sequences. We subsequently refined the approach to eliminate multiple primer sets to the same loci. The remaining 18 markers were all highly polymorphic, amplifying on average 11.7 alleles per marker (range = 6-20) in 11 tetraploid roses, exceeding the 8.2 alleles per marker of the 24 most polymorphic markers genotyped previously. This strategy therefore represents a major step forward in the development of highly polymorphic microsatellite markers.

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Genetic structure and diversity analysis in Vitis vinifera L. cultivars from Iran using SSR markers

Cited by 33 publications

References 29 publications

Genetic characterization of autochthonous grapevine cultivars from Eastern Turkey by simple sequence repeats (SSRs)

Genetic characterization of autochthonous grapevine cultivars from Eastern Turkey by simple sequence repeats (SSRs)

Biochemical composition and antioxidant activity affected by spraying potassium sulfate in black grape (Vitis vinifera L. cv. Rasha)

Efficient development of highly polymorphic microsatellite markers based on polymorphic repeats in transcriptome sequences of multiple individuals

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