ArticleBMC plant biology2008
SNP high-throughput screening in grapevine using the SNPlex genotyping system.
Article in BMC plant biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- From acidity to sweetness: a comprehensive review of carbon accumulation in grape berries.Molecular horticulture · 2024Review
- Construction of a highly saturated Genetic Map for Vitis by Next-generation Restriction Site-associated DNA Sequencing.BMC plant biology · 2018Article
- Advances in ligase chain reaction and ligation-based amplifications for genotyping assays: Detection and applications.Mutation research. Reviews in mutation research · 2017Review
- Article
- Towards an open grapevine information system.Horticulture research · 2016Review
- New candidate genes for the fine regulation of the colour of grapes.Journal of experimental botany · 2015Article
- Article
- Phenotypic diversity and association mapping for fruit quality traits in cultivated tomato and related species.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Article
- Saturated linkage map construction in Rubus idaeus using genotyping by sequencing and genome-independent imputation.BMC genomics · 2013Article
- Vitis phylogenomics: hybridization intensities from a SNP array outperform genotype calls.PloS one · 2013Article
- Evaluation of SNP Data from the Malus Infinium Array Identifies Challenges for Genetic Analysis of Complex Genomes of Polyploid Origin.PloS one · 2013Article
- Pinot blanc and Pinot gris arose as independent somatic mutations of Pinot noir.Journal of experimental botany · 2012Article
- Identification of SNPs in RNA-seq data of two cultivars of Glycine max (soybean) differing in drought resistance.Genetics and molecular biology · 2012Article
- Development of a dense SNP-based linkage map of an apple rootstock progeny using the Malus Infinium whole genome genotyping array.BMC genomics · 2012Article
- Selection of 29 highly informative InDel markers for human identification and paternity analysis in Chinese Han population by the SNPlex genotyping system.Molecular biology reports · 2012Article
- Sequence based polymorphic (SBP) marker technology for targeted genomic regions: its application in generating a molecular map of the Arabidopsis thaliana genome.BMC genomics · 2012Article
- Article
- SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects.BMC bioinformatics · 2011Article
- A high-throughput data mining of single nucleotide polymorphisms in Coffea species expressed sequence tags suggests differential homeologous gene expression in the allotetraploid Coffea arabica.Plant physiology · 2010Article
- Highly-multiplexed SNP genotyping for genetic mapping and germplasm diversity studies in pea.BMC genomics · 2010Article
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7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundUntil recently, only a small number of low- and mid-throughput methods have been used for single nucleotide polymorphism (SNP) discovery and genotyping in grapevine (Vitis vinifera L.). However, following completion of the sequence of the highly heterozygous genome of Pinot Noir, it has been possible to identify millions of electronic SNPs (eSNPs) thus providing a valuable source for high-throughput genotyping methods.
resultsHerein we report the first application of the SNPlexgenotyping system in grapevine aiming at the anchoring of an eukaryotic genome. This approach combines robust SNP detection with automated assay readout and data analysis. 813 candidate eSNPs were developed from non-repetitive contigs of the assembled genome of Pinot Noir and tested in 90 progeny of Syrah x Pinot Noir cross. 563 new SNP-based markers were obtained and mapped. The efficiency rate of 69% was enhanced to 80% when multiple displacement amplification (MDA) methods were used for preparation of genomic DNA for the SNPlex assay.
conclusionUnlike other SNP genotyping methods used to investigate thousands of SNPs in a few genotypes, or a few SNPs in around a thousand genotypes, the SNPlex genotyping system represents a good compromise to investigate several hundred SNPs in a hundred or more samples simultaneously. Therefore, the use of the SNPlex assay, coupled with whole genome amplification (WGA), is a good solution for future applications in well-equipped laboratories.
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