Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata
Genetic diversity is unusually high at loci in the S-locus region of the self-incompatible species of the flowering plant, Arabidopsis lyrata, not just in the S loci themselves, but also at two nearby loci. In a previous study of a single natural population from Iceland, we attributed this elevated...
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ftpubmed:oai:pubmedcentral.nih.gov:1950637 2023-05-15T16:51:10+02:00 Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata Kamau, Esther Charlesworth, Brian Charlesworth, Deborah 2007-08 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950637 http://www.ncbi.nlm.nih.gov/pubmed/17565949 https://doi.org/10.1534/genetics.107.072231 en eng Copyright © 2007 by the Genetics Society of America http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950637 http://www.ncbi.nlm.nih.gov/pubmed/17565949 http://dx.doi.org/10.1534/genetics.107.072231 Copyright © 2007 by the Genetics Society of America Investigations Text 2007 ftpubmed https://doi.org/10.1534/genetics.107.072231 2013-09-01T00:52:38Z Genetic diversity is unusually high at loci in the S-locus region of the self-incompatible species of the flowering plant, Arabidopsis lyrata, not just in the S loci themselves, but also at two nearby loci. In a previous study of a single natural population from Iceland, we attributed this elevated polymorphism to linkage disequilibrium (LD) between variants at loci close to the S locus and the S alleles, which are maintained in the population by balancing selection. With the four S-flanking loci whose diversity we previously studied, we could not determine the extent of the region linked to the S loci in which neutral sites are affected. We also could not exclude the possibility of a population bottleneck, or of admixture, as causes of the LD. We have now studied four more distant loci flanking the S-locus region, and more populations, and we analyze the results using a theoretical model of the effect of balancing selection on diversity at linked neutral sites within and between different functional S-allelic classes. In the model, diversity is a function of the number of selectively maintained alleles and the recombination distances from the selectively maintained sites. We use the model to estimate the number of different functional S alleles, their turnover rate, and recombination rates between the S-locus region and other loci. Our estimates suggest that there is a small region of very low recombination surrounding the S-locus region. Text Iceland PubMed Central (PMC) Genetics 176 4 2357 2369 |
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Investigations Kamau, Esther Charlesworth, Brian Charlesworth, Deborah Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
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Investigations |
description |
Genetic diversity is unusually high at loci in the S-locus region of the self-incompatible species of the flowering plant, Arabidopsis lyrata, not just in the S loci themselves, but also at two nearby loci. In a previous study of a single natural population from Iceland, we attributed this elevated polymorphism to linkage disequilibrium (LD) between variants at loci close to the S locus and the S alleles, which are maintained in the population by balancing selection. With the four S-flanking loci whose diversity we previously studied, we could not determine the extent of the region linked to the S loci in which neutral sites are affected. We also could not exclude the possibility of a population bottleneck, or of admixture, as causes of the LD. We have now studied four more distant loci flanking the S-locus region, and more populations, and we analyze the results using a theoretical model of the effect of balancing selection on diversity at linked neutral sites within and between different functional S-allelic classes. In the model, diversity is a function of the number of selectively maintained alleles and the recombination distances from the selectively maintained sites. We use the model to estimate the number of different functional S alleles, their turnover rate, and recombination rates between the S-locus region and other loci. Our estimates suggest that there is a small region of very low recombination surrounding the S-locus region. |
format |
Text |
author |
Kamau, Esther Charlesworth, Brian Charlesworth, Deborah |
author_facet |
Kamau, Esther Charlesworth, Brian Charlesworth, Deborah |
author_sort |
Kamau, Esther |
title |
Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
title_short |
Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
title_full |
Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
title_fullStr |
Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
title_full_unstemmed |
Linkage Disequilibrium and Recombination Rate Estimates in the Self-Incompatibility Region of Arabidopsis lyrata |
title_sort |
linkage disequilibrium and recombination rate estimates in the self-incompatibility region of arabidopsis lyrata |
publisher |
Copyright © 2007 by the Genetics Society of America |
publishDate |
2007 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950637 http://www.ncbi.nlm.nih.gov/pubmed/17565949 https://doi.org/10.1534/genetics.107.072231 |
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Iceland |
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Iceland |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950637 http://www.ncbi.nlm.nih.gov/pubmed/17565949 http://dx.doi.org/10.1534/genetics.107.072231 |
op_rights |
Copyright © 2007 by the Genetics Society of America |
op_doi |
https://doi.org/10.1534/genetics.107.072231 |
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Genetics |
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176 |
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4 |
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2369 |
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1766041278438440960 |