Molecular Characterization of Almond Cultivars Using Microsatellite Markers

Amirbakhtiar, Nazanin; Shiran, Behrouz; Moradi, H.; Sayed-Tabatabaei, Badraldin Ebrahim

doi:10.17660/actahortic.2006.726.5

Cited by 6 publications

(4 citation statements)

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“…As there is a lack of a standardized set of microsatellite primers for almond, primer pairs of closely related species have been regularly used in molecular descriptions 27 – 29 . In this study, amplification of genomic DNA was performed for 219 SSR and EST-SSR loci designed from different Prunus species (peach, almond, plum, sweet cherry, and sour cherry).…”

Section: Resultsmentioning

confidence: 99%

RETRACTED ARTICLE: Comparison of traditional and new generation DNA markers declares high genetic diversity and differentiated population structure of wild almond species

Sorkheh

Dehkordi

Erċışlı

et al. 2017

Sci Rep

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Wild almond species as sources of genetic variation may have crucial importance in breeding. A total of 389 accessions of 18 species have been analysed using inter-retrotransposon amplified polymorphism (IRAP), retrotransposon-microsatellite amplified polymorphism (REMAP), sequence-specific amplification polymorphism (S-SAP), amplified fragment length polymorphism (AFLP), inter simple sequence repeat (ISSR) and simple sequence repeats (SSR). Retrotransposon markers indicated the presence and movement of some Ty3-gypsy and Ty1-copia-elements in almond genome. Since transposable elements are associated with large-scale genome alterations, REMAP produced more reliable phylogenetic inferences than AFLP where homoplasy may affect clustering. In addition, high resolution melting (HRM) analysis was developed to detect SNPs. HRM analysis revealed 1:189 bp frequency of SNPs in exon positions, and the transition-to-transversion proportion was 1.84:1. The low transition bias suggests low methylation levels in almond genome. The polymorphic information content (PIC) was the highest for SSR markers, while SNPs had an average PIC of 0.59, which is close to the values of the rest of the markers. Huge genetic diversity, fragmented population structure and footprints of human selection was confirmed by merging information from all marker strategies. Considering time, cost and performance HRM can be a marker of choice in future studies of Prunus diversity.

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Section: Resultsmentioning

confidence: 99%

RETRACTED ARTICLE: Comparison of traditional and new generation DNA markers declares high genetic diversity and differentiated population structure of wild almond species

Sorkheh

Dehkordi

Erċışlı

et al. 2017

Sci Rep

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“…The identification of local types and the explanation of phylogenetic relationships among Sardinian, Apulian and reference accessions are of interest to ongoing breeding efforts to improve the adaptation and quality of the almond crop. Moreover the adoption of highly reproducible SSR loci already used in other studies [9,11,27,32], will facilitate dataset integrations. An integrated molecular fingerprint dataset of almond genotypes will be a helpful instrument for planning conservation and valorisation policies both at international and local level.…”

Section: Genetic Structurementioning

confidence: 99%

“…Genotypic methods are more flexible and, unlike most phenotypic ones, are unaffected by the plants' growing environment. Among the various marker systems to hand, simple sequence repeat (SSR) assays have proven to be highly polymorphic and simple to implement in both almond and peach [8,9,10,11,12,13,14]. Only few reports have described the diversity of Italian almond cultivars.…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity in two Italian almond collections

Rigoldi

Rapposelli

Giorgio

et al. 2015

Electronic Journal of Biotechnology

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Background: Sweet-seeded domesticated almonds were brought to the Mediterranean Basin from central Asia about 4000 years ago. In Italy, most of the almonds produced are cultivated in the southern part of the country. Local populations of the tree in Sardinia are largely seed-derived and mostly self-incompatible, so have developed extensive genetic diversity. The need to protect biodiversity has prompted a revived interest in local genetic materials in almond. Two Italian collections have been established, one in Sardinia and the other in Apulia. These collections were the focus of the present evaluation of genetic diversity. Results: Eleven SSRs (microsatellites) were used for fingerprinting. The Sardinian germplasm was highly polymorphic, revealing a mean of 14.5 alleles per locus and a mean heterozygosity of 0.71. Using a model-based clustering approach, two genetic clusters were distinguished: one included all the commercial varieties and most of the Sardinian accessions, and the other most of the Apulian accessions. A similar structure was produced using a distance-based cluster analysis. The Sardinian accessions could still be distinguished from the commercial germplasm with few exceptions. Conclusion: The extensive genetic variability present in the Sardinian and Apulian almond germplasm indicates that these materials represent an important source of genes for the improvement of the crop.

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“…Simple sequence repeat (SSR) or microsatellite markers have become the marker of choice for genotype identification (Bassil, 2005). SSRs were implemented for identification, genetic diversity, genetic relationship and for breeding programs among different fruit species like Peach (Ahmed et al, 2004), Apricot (Perez et al, 2005), Cherry (Ganopoulos et al, 2011), Almond (Amirbakhtiar et al, 2006), Apple (Muzher et al, 2007;El-Halabi et al,2009) and Pear (Yu-fen et al,2007;Van Dyk et al,2008;Tian et al, 2012). On the other hand, SSR technique was used for diversity studies of cultivated and wild P. communis genotypes (Volk et al, 2006;Brini et al, 2008), to identify incorrect pear cultivars and cultivars with multiple names to establish credible gene bank to create a resource for breeding, plant nurseries and quality control (Xuan, 2008), identify historic pear trees in U.S. National Parks as an important plan to conserve historical orchards within National Park boundaries (Bassil et al, 2008 ).…”

Section: Also Amplified Fragment Length Polymorphism (Aflp)mentioning

confidence: 99%

Molecular Characterization of Some Syrian Pears ( Pyrus Syriaca Boiss ) Genotypes Using SSR Marker = التوصيف الجزيئي لبعض طرز الأجاص السورية Pyrus Syriaca Boiss باستخدام تقنية ال SSR

Muzher¹,

Sharaf²

2014

JJAS

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The present investigation was carried out to study the genetic variability and the relationship among six Syrian pears; 3 wild type genotypes (W.T 1 , W.T 2 , and W.T 3) of pyrus syriaca Boiss, 3 Syrian pyrus cultivars (Meskawi, Romi and Abu-satel), and Liconte cultivar by using fifteen SSR primer-pairs. Fourteen primer pairs of them were able to characterize the studied pear genotypes, they revealed 47 alleles, of which 44 were polymorphic (93.6%) among all genotypes, when focusing on the Syrian pear genotypes only 42 of 45 alleles were polymorphic (93.3%). The number of alleles per primer-pairs ranged from 1 to 6 alleles with an average 3.4. Liconte revealed low genetic relationship with Syrian pear genotypes which indicate that the two groups belong to different species or subspecies. On the other hand, Meskawi cultivar revealed the highest genetic similarity with W.T 3 (65%). The dendrogram clustered the seven pear genotypes into two clusters where Liconte and Romi genotypes grouped in the first cluster, and the other genotypes grouped in the second cluster. A total of 12 SSR primer-pairs out of 14 characterized the seven pear genotypes by 20 unique SSR alleles (17 positive and 3 negative). The average of expected heterozygosity (H e) was 0.263 and the marker index was 11.57. Consequently, the obtained data reflected the ability of SSR marker to identify the genetic variability among the seven pear genotypes.

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Molecular Characterization of Almond Cultivars Using Microsatellite Markers

Cited by 6 publications

References 0 publications

RETRACTED ARTICLE: Comparison of traditional and new generation DNA markers declares high genetic diversity and differentiated population structure of wild almond species

RETRACTED ARTICLE: Comparison of traditional and new generation DNA markers declares high genetic diversity and differentiated population structure of wild almond species

Genetic diversity in two Italian almond collections

Molecular Characterization of Some Syrian Pears ( Pyrus Syriaca Boiss ) Genotypes Using SSR Marker = التوصيف الجزيئي لبعض طرز الأجاص السورية Pyrus Syriaca Boiss باستخدام تقنية ال SSR

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