Quantification of Allele Dosage in tetraploid Roses

M. Vukosavljev, M. Di Guardo, W.E. van de Weg, P. Arens, M.J.M. Smulders

Research output: Contribution to journalComment/Letter to the editorAcademic

Abstract

Many important crops (wheat, potato, strawberry, rose, etc.) are polyploid. This complicates genetic analyses, as the same locus can be present on multiple homologous or homoeologous chromosomes. SSR markers are suitable for mapping in segregating populations of polyploids as they are multi-allelic, making it possible to detect different marker alleles of the same locus on multiple homologous r homoeologous chromosomes. If a SSR primer pair gives fewer alleles than the ploidy level, quantification of allele dosages increases information content. We show the power of this approach for the generation of a genetic map in a auto-tetraploid garden rose population. Alleles were scored quantitatively using the area under the peaks in ABI electropherograms, and allele dosages were inferred based on the ratios between the peak areas for two alleles in which these two alleles occurred together. We hereby start with some reference cases in which the ratio’s are determined between alleles that are in simplex condition. We thus resolved the full progeny genotypes, generated more data and mapped markers more accurately, including “null” alleles. The maps will be used for locating QTLs for winterhardiness in tetraploid roses.
LanguageEnglish
Pages277-282
JournalScienceMed
Volume3
Issue number3
Publication statusPublished - 2012

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tetraploidy
Rosa
alleles
dosage
polyploidy
loci
null alleles
ploidy
automobiles
strawberries
gardens
quantitative trait loci
potatoes
chromosomes
wheat
genotype
crops

Cite this

Vukosavljev, M. ; Di Guardo, M. ; van de Weg, W.E. ; Arens, P. ; Smulders, M.J.M. / Quantification of Allele Dosage in tetraploid Roses. In: ScienceMed. 2012 ; Vol. 3, No. 3. pp. 277-282.
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title = "Quantification of Allele Dosage in tetraploid Roses",
abstract = "Many important crops (wheat, potato, strawberry, rose, etc.) are polyploid. This complicates genetic analyses, as the same locus can be present on multiple homologous or homoeologous chromosomes. SSR markers are suitable for mapping in segregating populations of polyploids as they are multi-allelic, making it possible to detect different marker alleles of the same locus on multiple homologous r homoeologous chromosomes. If a SSR primer pair gives fewer alleles than the ploidy level, quantification of allele dosages increases information content. We show the power of this approach for the generation of a genetic map in a auto-tetraploid garden rose population. Alleles were scored quantitatively using the area under the peaks in ABI electropherograms, and allele dosages were inferred based on the ratios between the peak areas for two alleles in which these two alleles occurred together. We hereby start with some reference cases in which the ratio’s are determined between alleles that are in simplex condition. We thus resolved the full progeny genotypes, generated more data and mapped markers more accurately, including “null” alleles. The maps will be used for locating QTLs for winterhardiness in tetraploid roses.",
author = "M. Vukosavljev and {Di Guardo}, M. and {van de Weg}, W.E. and P. Arens and M.J.M. Smulders",
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Quantification of Allele Dosage in tetraploid Roses. / Vukosavljev, M.; Di Guardo, M.; van de Weg, W.E.; Arens, P.; Smulders, M.J.M.

In: ScienceMed, Vol. 3, No. 3, 2012, p. 277-282.

Research output: Contribution to journalComment/Letter to the editorAcademic

TY - JOUR

T1 - Quantification of Allele Dosage in tetraploid Roses

AU - Vukosavljev, M.

AU - Di Guardo, M.

AU - van de Weg, W.E.

AU - Arens, P.

AU - Smulders, M.J.M.

N1 - Funding: TTI Green Genetics, project Hyperrose

PY - 2012

Y1 - 2012

N2 - Many important crops (wheat, potato, strawberry, rose, etc.) are polyploid. This complicates genetic analyses, as the same locus can be present on multiple homologous or homoeologous chromosomes. SSR markers are suitable for mapping in segregating populations of polyploids as they are multi-allelic, making it possible to detect different marker alleles of the same locus on multiple homologous r homoeologous chromosomes. If a SSR primer pair gives fewer alleles than the ploidy level, quantification of allele dosages increases information content. We show the power of this approach for the generation of a genetic map in a auto-tetraploid garden rose population. Alleles were scored quantitatively using the area under the peaks in ABI electropherograms, and allele dosages were inferred based on the ratios between the peak areas for two alleles in which these two alleles occurred together. We hereby start with some reference cases in which the ratio’s are determined between alleles that are in simplex condition. We thus resolved the full progeny genotypes, generated more data and mapped markers more accurately, including “null” alleles. The maps will be used for locating QTLs for winterhardiness in tetraploid roses.

AB - Many important crops (wheat, potato, strawberry, rose, etc.) are polyploid. This complicates genetic analyses, as the same locus can be present on multiple homologous or homoeologous chromosomes. SSR markers are suitable for mapping in segregating populations of polyploids as they are multi-allelic, making it possible to detect different marker alleles of the same locus on multiple homologous r homoeologous chromosomes. If a SSR primer pair gives fewer alleles than the ploidy level, quantification of allele dosages increases information content. We show the power of this approach for the generation of a genetic map in a auto-tetraploid garden rose population. Alleles were scored quantitatively using the area under the peaks in ABI electropherograms, and allele dosages were inferred based on the ratios between the peak areas for two alleles in which these two alleles occurred together. We hereby start with some reference cases in which the ratio’s are determined between alleles that are in simplex condition. We thus resolved the full progeny genotypes, generated more data and mapped markers more accurately, including “null” alleles. The maps will be used for locating QTLs for winterhardiness in tetraploid roses.

M3 - Comment/Letter to the editor

VL - 3

SP - 277

EP - 282

JO - ScienceMed

T2 - ScienceMed

JF - ScienceMed

SN - 2039-4632

IS - 3

ER -