A set of microsatellite markers with long core repeat optimized for grape (Vitis spp.) genotyping

Cipriáni, G.; Marrazzo, M. T.; Gaspero, Gabriele Di; Pfeiffer, Antonella; Morgante, Michèle; Testolin, R.

doi:10.1186/1471-2229-8-127

Cited by 114 publications

(91 citation statements)

References 35 publications

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“…Extracted DNA was quantified using a Nanodrop spectrophotometer and the concentrations were standardised to fall within the range 25-35 ng/ll. SSRs were selected from the literature and the NCBI database (Thomas and Scott 1993;Bowers et al 1996Bowers et al , 1999Scott et al 2000;Decroocq et al 2003;Adam-Blondon et al 2004;Di Gaspero et al 2005;Merdinoglu et al 2005;Doligez et al 2006;Cipriani et al 2008; http://www.ncbi.nlm.nih.gov/) with the aim to achieve comprehensive genome coverage and increased marker density for known minor and major mildew resistance QTL regions on chromosomes 5, 12, 15 and 18. A standard set of PCR conditions (1.8 mM MgCl 2 , 0.75 U Supertherm Taq, 5 mM dNTP and 0.3 pmol/ll of each primer) was used for all reactions.…”

Section: Molecular Analysismentioning

confidence: 99%

Detection of downy and powdery mildew resistance QTL in a ‘Regent’ × ‘RedGlobe’ population

et al. 2014

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One hundred and eighty six F 1 plants from a 'Regent' 9 'RedGlobe' cross were used to generate a partial linkage map with 139 microsatellite markers spanning all 19 chromosomes. Phenotypic scores for downy mildew, taken over two years, confirmed a major resistance QTL (Rpv3) against downy mildew in the interval VVIN16-cjvh to UDV108 on chromosome 18 of 'Regent'. This locus explained up to 62 % of the phenotypic variance observed. Additionally a putative minor downy mildew resistance locus was observed on chromosome 1 in one season. A major resistance locus against powdery mildew (Ren3) was also identified on chromosome 15 of 'Regent' in the interval UDV116 to VChr15CenGen06. This study established the efficacy of and validated the 'Regent'-derived downy and powdery mildew major resistance genes/QTL under South African conditions. Closely linked SSR markers for marker-assisted selection and gene pyramiding strategies were identified.

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Section: Molecular Analysismentioning

confidence: 99%

Detection of downy and powdery mildew resistance QTL in a ‘Regent’ × ‘RedGlobe’ population

et al. 2014

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“…This has allowed the identification of hundreds of them and the design of primers for their analysis throughout the last two decades Bowers et al 1996Bowers et al , 1999Sefc et al 1999;Scott et al 2000;Lefort et al 2002;Decroocq et al 2003;Arroyo-García and Martínez-Zapater 2004;Di Gaspero et al 2005;Merdinoglu et al 2005;Cipriani et al 2008;Huang et al 2011); up to 1,079V. vinifera SSR probes can be currently found at the NCBI database (http://www.…”

Section: Introductionmentioning

confidence: 99%

Whole-genome genotyping of grape using a panel of microsatellite multiplex PCRs

Zarouri¹,

Vargas²,

Gaforio³

et al. 2015

Tree Genetics & Genomes

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The use of microsatellite markers in large-scale genetic studies is limited by its low throughput and high cost and labor requirements. Here, we provide a panel of 45 multiplex PCRs for fast and cost-efficient genome-wide fluorescencebased microsatellite analysis in grapevine. The developed multiplex PCRs panel (with up to 15-plex) enables the scoring of 270 loci covering all the grapevine genome (9 to 20 loci/chromosome) using only 45 PCRs and sequencer runs. The 45 multiplex PCRs were validated using a diverse grapevine collection of 207 accessions, selected to represent most of the cultivated Vitis vinifera genetic diversity. Particular attention was paid to quality control throughout the whole process (assay replication, null allele detection, ease of scoring). Genetic diversity summary statistics and features of electrophoretic profiles for each studied marker are provided, as are the genotypes of 25 common cultivars that could be used as references in other studies.

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“…Microsatellites, as efficient molecular tools, are beneficial in larger or smaller grapevine genetic resource collections, as well as in locally specific [22] and autochthonous grapevine cultivars [23]. Their high discrimination power also reflects variation over the grapevine genome [24]. Based on the structure of accessions in the analysed set and microsatellite markers used, high genetic diversity could be expected in this study.…”

Section: Discussionmentioning

confidence: 97%

“…Further applications of microsatellites should be improved by the development of marker-specific allelic ladders to avoid discrepancies in the determination of allele size and to harmonise evaluation of data generated by different equipment and in different laboratories [24]. Efficient use of microsatellites should also be increased by the availability of a larger set of new microsatellite markers suitable for multiloading and multiplexing, respectively [6].…”

Section: Discussionmentioning

confidence: 99%

Genotyping of Vitis vinifera L. within the Slovak national collection of genetic resources

Dokupilová

Migliaro²,

Mihálik

et al. 2014

Open Life Sciences

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Microsatellites were used as a very effective tool for genetic diversity analysis and characterization of 51 grapevine (Vitis vinifera L.) accessions from the national collection of genetic resources. Genetic diversity was relatively high, 8.91 alleles were detected per analysed microsatellite locus in average, and fifty-one accessions were distinguished into 45 groups. Distribution of recent Slovak cultivars across the dendrogram accented both their genetic diversity and the effectiveness of the national breeding program in maintaining genetic diversity and generating new genetic variants. Each cultivar was different from the others and twelve of them contained 77.6% of the total genetic diversity of the whole analysed set. Microsatellite patterns were also able to confirm parentage in selected Slovak cultivars. An unusual phenomenon of triallelism was also detected in one of the analysed accessions. The present study has initiated molecular characterization within the national grapevine genetic resource collection and their comparison with well-established international cultivars.

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A set of microsatellite markers with long core repeat optimized for grape (Vitis spp.) genotyping

Abstract: Background: Individual fingerprinting based on molecular markers has become a popular tool for studies of population genetics and analysis of genetic diversity in germplasm collections, including the solution of synonymy/homonymy and analysis of paternity and kinship.

Cited by 114 publications

References 35 publications

Detection of downy and powdery mildew resistance QTL in a ‘Regent’ × ‘RedGlobe’ population

Detection of downy and powdery mildew resistance QTL in a ‘Regent’ × ‘RedGlobe’ population

Whole-genome genotyping of grape using a panel of microsatellite multiplex PCRs

Genotyping of Vitis vinifera L. within the Slovak national collection of genetic resources

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