The genus Prunus taxonomy has been widely studied using different molecular markers. Among the sev-eral markers used for studying the genetic variability on Prunus, extranuclear DNA analysis is a usefultool for population and evolutionary biology studies. High resolution melting (HRM), considered a pow-erful method to easily detect genetic differences among sequences, was used to analyse a group of 22genotypes belonging to 10 Prunus species using twelve newly designed chloroplastic single nucleotidevariants (SNVs), ten chloroplastic SSRs, and seven universal mitochondrial markers already available inliterature. The analysis allowed the investigation of the predicted and newly discovered SNVs and thedetection of more alleles because of the variability found in the sequences flanking cpSSR repeat motifs.Overall, five newly discovered chloroplastic markers, four cpSSRs, and three mitochondrial markers,referring to nine loci, allowed the identification of two indels, 37 SNVs, and three repeat motif variation.The results allowed the unambiguous separation of Prunus genotypes at the species as well as at the cul-tivar level, confirming the discrimination power of the HRM derived markers and previous results on thephylogenetic relationships within the Prunus genus. The developed panel of SNVs and SSR cytoplasmicmarkers can be employed to identify different varieties and hybrids using the HRM approach withoutthe requirement of the post-PCR procedures required in traditional molecular markers analysis.

HRM analysis of chloroplast and mitochondrial DNA revealed additional genetic variability in Prunus

Distefano G.;La Malfa S.;Gentile A.
2015-01-01

Abstract

The genus Prunus taxonomy has been widely studied using different molecular markers. Among the sev-eral markers used for studying the genetic variability on Prunus, extranuclear DNA analysis is a usefultool for population and evolutionary biology studies. High resolution melting (HRM), considered a pow-erful method to easily detect genetic differences among sequences, was used to analyse a group of 22genotypes belonging to 10 Prunus species using twelve newly designed chloroplastic single nucleotidevariants (SNVs), ten chloroplastic SSRs, and seven universal mitochondrial markers already available inliterature. The analysis allowed the investigation of the predicted and newly discovered SNVs and thedetection of more alleles because of the variability found in the sequences flanking cpSSR repeat motifs.Overall, five newly discovered chloroplastic markers, four cpSSRs, and three mitochondrial markers,referring to nine loci, allowed the identification of two indels, 37 SNVs, and three repeat motif variation.The results allowed the unambiguous separation of Prunus genotypes at the species as well as at the cul-tivar level, confirming the discrimination power of the HRM derived markers and previous results on thephylogenetic relationships within the Prunus genus. The developed panel of SNVs and SSR cytoplasmicmarkers can be employed to identify different varieties and hybrids using the HRM approach withoutthe requirement of the post-PCR procedures required in traditional molecular markers analysis.
2015
Cytoplasm marker; High resolution melting; Microsatellite
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/20.500.11769/18203
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