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Diversity arrays technology (DArT) markers in apple for genetic linkage maps
- Source :
- Molecular Breeding 29 (2012) 3, Molecular Breeding, Molecular Breeding, 29(3), 645-660
- Publisher :
- Springer Nature
-
Abstract
- Diversity Arrays Technology (DArT) provides a high-throughput whole-genome genotyping platform for the detection and scoring of hundreds of polymorphic loci without any need for prior sequence information. The work presented here details the development and performance of a DArT genotyping array for apple. This is the first paper on DArT in horticultural trees. Genetic mapping of DArT markers in two mapping populations and their integration with other marker types showed that DArT is a powerful high-throughput method for obtaining accurate and reproducible marker data, despite the low cost per data point. This method appears to be suitable for aligning the genetic maps of different segregating populations. The standard complexity reduction method, based on the methylation-sensitive PstI restriction enzyme, resulted in a high frequency of markers, although there was 52-54% redundancy due to the repeated sampling of highly similar sequences. Sequencing of the marker clones showed that they are significantly enriched for low-copy, genic regions. The genome coverage using the standard method was 55-76%. For improved genome coverage, an alternative complexity reduction method was examined, which resulted in less redundancy and additional segregating markers. The DArT markers proved to be of high quality and were very suitable for genetic mapping at low cost for the apple, providing moderate genome coverage. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11032-011-9579-5) contains supplementary material, which is available to authorized users.
- Subjects :
- malus-pumila mill
scab resistance
Genetic mapping
Computational biology
Plant Science
Biology
Quantitative trait locus
Bioinformatics
Article
Gene mapping
PRI Biodiversiteit en Veredeling
Genetic linkage
assisted selection
ssr markers
Genetics
DArT
Genotyping
Molecular Biology
computer.programming_language
Dart
Diversity
Diversity Arrays Technology
venturia-inaequalis
Consensus map
consensus map
x-domestica borkh
Apple
Molecular markers
fire-blight resistance
PRI Biodiversity and Breeding
Plant Breeding
wild relatives
quantitative trait loci
Polymorphic locus
computer
human activities
Agronomy and Crop Science
Biotechnology
Subjects
Details
- Language :
- English
- ISSN :
- 13803743
- Volume :
- 29
- Issue :
- 3
- Database :
- OpenAIRE
- Journal :
- Molecular Breeding
- Accession number :
- edsair.doi.dedup.....d17c04618801beef9ef2935b35e6d847
- Full Text :
- https://doi.org/10.1007/s11032-011-9579-5