Natural DNA variation at candidate loci is associated with potato chip color, tuber starch content, yield and starch yield |
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Authors: | Li Li Maria-João Paulo Josef Strahwald Jens Lübeck Hans-Reinhard Hofferbert Eckhart Tacke Holger Junghans Jörg Wunder Astrid Draffehn Fred van Eeuwijk Christiane Gebhardt |
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Institution: | Department Plant Breeding and Genetics, MPI for Plant Breeding Research, Carl von Linné Weg 10, 50829 Cologne, Germany. |
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Abstract: | Complex characters of plants such as starch and sugar content of seeds, fruits, tubers and roots are controlled by multiple
genetic and environmental factors. Understanding their molecular basis will facilitate diagnosis and combination of superior
alleles in crop improvement programs (“precision breeding”). Association genetics based on candidate genes is one approach
toward this goal. Tetraploid potato varieties and breeding clones related by descent were evaluated for 2 years for chip
quality before and after cold storage, tuber starch content, yield and starch yield. Chip quality is inversely correlated
with tuber sugar content. A total of 36 loci on 11 potato chromosomes were evaluated for natural DNA variation in 243 individuals.
These loci included microsatellites and genes coding for enzymes that function in carbohydrate metabolism or transport (candidate
loci). The markers were used to analyze population structure and were tested for association with the tuber quality traits.
Highly significant and robust associations of markers with 1–4 traits were identified. Most frequent were associations with
chip quality and tuber starch content. Alleles increasing tuber starch content improved chip quality and vice versa. With
two exceptions, the most significant and robust associations (q < 0.01) were observed with DNA variants in genes encoding enzymes that function in starch and sugar metabolism or transport.
Comparing linkage and linkage disequilibrium between loci provided evidence for the existence of large haplotype blocks in
the breeding materials analyzed.
Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. |
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