Toward a Marker-Dense Meiotic Map of the Potato Genome: Lessons from Linkage Group I

Edwige Isidore, Hans Van Os, Sandra Andrzejewski, Jaap Bakker, Imanol Barrena, Glenn J. Bryan, Bernard Caromel, Hennan Van Eck, Bilal Ghareeb, Walter De Jong, Paul Van Koert, Véronique Lefebvre, Dan Milbourne, Enrique Ritter, Jeroen Rouppe Van Der Voort, Françoise Rousselle-Bourgeois, Joke Van Vliet, Robbie Waugh (Lead / Corresponding author)

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Abstract

Segregation data were obtained for 1260 potato linkage group I-specific AFLP loci from a heterozygous diploid potato population. Analytical tools that identified potential typing errors and/or inconsistencies in the data and that assembled cosegregating markers into bins were applied. Bins contain multiple-marker data sets with an identical segregation pattern, which is defined as the bin signature. The bin signatures were used to construct a skeleton bin map that was based solely on observed recombination events. Markers that did not match any of the bin signatures exactly (and that were excluded from the calculation of the skeleton bin map) were placed on the map by maximum likelihood. The resulting maternal and paternal maps consisted of 95 and 101 bins, respectively. Markers derived from EcoRI/MseI, PstI/MseI, and SacI/MseI primer combinations showed different genetic distributions. Approximately three-fourths of the markers placed into a bin were considered to fit well on the basis of an estimated residual "error rate" of 0-3%. However, twice as many PstI-based markers fit badly, suggesting that parental PstI-site methylation patterns had changed in the population. Recombination frequencies were highly variable across the map. Inert, presumably centromeric, regions caused extensive marker clustering while recombination hotspots (or regions identical by descent) resulted in empty bins, despite the level of marker saturation.

Original languageEnglish
Pages (from-to)2107-2116
Number of pages10
JournalGenetics
Volume165
Issue number4
Publication statusPublished - 1 Dec 2003

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    Isidore, E., Van Os, H., Andrzejewski, S., Bakker, J., Barrena, I., Bryan, G. J., Caromel, B., Van Eck, H., Ghareeb, B., De Jong, W., Van Koert, P., Lefebvre, V., Milbourne, D., Ritter, E., Van Der Voort, J. R., Rousselle-Bourgeois, F., Van Vliet, J., & Waugh, R. (2003). Toward a Marker-Dense Meiotic Map of the Potato Genome: Lessons from Linkage Group I. Genetics, 165(4), 2107-2116.