Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I
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 PsiI-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.
Main Authors: | , , , , , , , , , , , , , , , , , |
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Format: | Article/Letter to editor biblioteca |
Language: | English |
Subjects: | comigrating aflp markers, comprehensive genetic-map, construction, dna methylation, lycopersicon-esculentum, plants, population, resistance, strategy, tomato, |
Online Access: | https://research.wur.nl/en/publications/toward-a-marker-dense-meiotic-map-of-the-potato-genome-lessons-fr |
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dig-wur-nl-wurpubs-3253942024-09-23 Isidore, E. van Os, H. Andrzejewski, S. Bakker, J. Barrena, I. Bryan, G.J. Caromel, B. van Eck, H.J. Ghareeb, B. de Jong, W. van Koert, P. Lefebvre, V. Milbourne, D. Ritter, E. Rouppe van der Voort, J.N.A.M. Rousselle-Bourgeois, F. van Vliet, J.M. Waugh, R. Article/Letter to editor Genetics 165 (2003) ISSN: 0016-6731 Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I 2003 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 PsiI-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. en application/pdf https://research.wur.nl/en/publications/toward-a-marker-dense-meiotic-map-of-the-potato-genome-lessons-fr 10.1093/genetics/165.4.2107 https://edepot.wur.nl/658014 comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato (c) publisher Wageningen University & Research |
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comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato |
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comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato Isidore, E. van Os, H. Andrzejewski, S. Bakker, J. Barrena, I. Bryan, G.J. Caromel, B. van Eck, H.J. Ghareeb, B. de Jong, W. van Koert, P. Lefebvre, V. Milbourne, D. Ritter, E. Rouppe van der Voort, J.N.A.M. Rousselle-Bourgeois, F. van Vliet, J.M. Waugh, R. Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
description |
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 PsiI-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. |
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Article/Letter to editor |
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comigrating aflp markers comprehensive genetic-map construction dna methylation lycopersicon-esculentum plants population resistance strategy tomato |
author |
Isidore, E. van Os, H. Andrzejewski, S. Bakker, J. Barrena, I. Bryan, G.J. Caromel, B. van Eck, H.J. Ghareeb, B. de Jong, W. van Koert, P. Lefebvre, V. Milbourne, D. Ritter, E. Rouppe van der Voort, J.N.A.M. Rousselle-Bourgeois, F. van Vliet, J.M. Waugh, R. |
author_facet |
Isidore, E. van Os, H. Andrzejewski, S. Bakker, J. Barrena, I. Bryan, G.J. Caromel, B. van Eck, H.J. Ghareeb, B. de Jong, W. van Koert, P. Lefebvre, V. Milbourne, D. Ritter, E. Rouppe van der Voort, J.N.A.M. Rousselle-Bourgeois, F. van Vliet, J.M. Waugh, R. |
author_sort |
Isidore, E. |
title |
Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
title_short |
Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
title_full |
Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
title_fullStr |
Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
title_full_unstemmed |
Toward a marker-dense meiotic map of the potato genome: lessons from linkage group I |
title_sort |
toward a marker-dense meiotic map of the potato genome: lessons from linkage group i |
url |
https://research.wur.nl/en/publications/toward-a-marker-dense-meiotic-map-of-the-potato-genome-lessons-fr |
work_keys_str_mv |
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