Diversity Arrays Technology (DArT) Markers in Apple for Genetic Linkage Maps

Overview

Journal Mol Breed

Specialties Biotechnology
Molecular Biology

Date 2012 Mar 13

PMID 22408382

Citations 17

Authors

Henk J Schouten

W Eric van de Weg

Jason Carling

Sabaz Ali Khan

Steven J McKay

Martijn P W van Kaauwen

Alexander H J Wittenberg

Herma J J Koehorst-van Putten

Yolanda Noordijk

Zhongshan Gao

D Jasper G Rees

Maria M van Dyk

Damian Jaccoud

Michael J Considine

Andrzej Kilian

Affiliations

Soon will be listed here.

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.

Citing Articles

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Multi-parent populations in crops: a toolbox integrating genomics and genetic mapping with breeding.

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New Male Specific Markers for Hop and Application in Breeding Program.

cerenak A, Kolenc Z, Sehur P, Whittock S, Koutoulis A, Beatson R Sci Rep. 2019; 9(1):14223.

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