Codominant analysis of banding data from a dominant marker system by normal mixtures.
Amplified fragment length polymorphisms (AFLPs) currently are among the most widely used marker systems. In many studies, AFLPs are analyzed on the basis of the presence or absence of a band on an electrophoretic gel. As a result, dominant homozygous individuals are not distinguished from heterozygous individuals, resulting in a considerable loss of information. This article shows how codominant information can be obtained if the amount of PCR products is quantified. Due to measurement variation, genotyping on the basis of such information is not error-free. We propose use of normal mixture distributions to determine the most likely genotype, given the data. The method is exemplified using AFLP data from sugar beet.
Piepho
H P
HP
Institut für Nutzpflanzenkunde, Universität-Gesamthochschule Kassel, 37213 Witzenhausen, Germany. piepho@wiz.uni-kassel.de
Koch
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D000704:Analysis of Variance; D016477:Artifacts; D019663:Chenopodiaceae / Q000737:chemistry / Q000235:genetics; D018744:DNA, Plant / Q000032:analysis / Q000235:genetics; D005069:Evaluation Studies as Topic; D005799:Genes, Dominant / Q000235:genetics*; D005819:Genetic Markers; D005838:Genotype; D006579:Heterozygote; D006720:Homozygote; D016013:Likelihood Functions; D008957:Models, Genetic; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic; D012150:Polymorphism, Restriction Fragment Length; D011237:Predictive Value of Tests; D012044:Regression Analysis
D018744:DNA, Plant; D005819:Genetic Markers