Relative Influences of Crossing Over and Gene Conversion on the Pattern of Linkage Disequilibrium in Arabidopsis thaliana-Reference-Cited by-同舟云学术

Relative Influences of Crossing Over and Gene Conversion on the Pattern of Linkage Disequilibrium in Arabidopsis thaliana

Published:2006-04-01 Issue:4 Volume:172 Page:2441-2448
ISSN:1943-2631
Container-title:Genetics
language:en
Short-container-title:

Author:

Plagnol Vincent¹,Padhukasahasram Badri¹,Wall Jeffrey D¹,Marjoram Paul²,Nordborg Magnus¹

Affiliation:

1. Molecular and Computational Biology Program, University of Southern California, Los Angeles, California 90089 and

2. Department of Preventive Medicine, Keck School of Medicine, University of Southern California, Los Angeles, California 90089

Abstract

Abstract In this article we infer the rates of gene conversion and crossing over in Arabidopsis thaliana from population genetic data. Our data set is a genomewide survey consisting of 1347 fragments of length 600 bp sequenced in 96 accessions. It has several orders of magnitude more markers than any previous nonhuman study. This allows for more accurate inference as well as a detailed comparison between theoretical expectations and observations. Our methodology is specifically set to account for deviations such as recurrent mutations or a skewed frequency spectrum. We found that even if some components of the model clearly do not fit, the pattern of LD conforms to theoretical expectations quite well. The ratio of gene conversion to crossing over is estimated to be around one. We also find evidence for fine-scale variations of the crossing-over rate.

Publisher

Oxford University Press (OUP)

Subject

Genetics

Link

https://academic.oup.com/genetics/article-pdf/172/4/2441/42068476/genetics2441.pdf

Reference25 articles.

1. Nucleotide Sequence Variation at Two Genes of the Phenylpropanoid Pathway, the FAH1 and F3H Genes, in Arabidopsis thaliana

2. Linkage Disequilibrium Patterns Across a Recombination Gradient in African Drosophila melanogaster

3. Evidence for substantial fine-scale variation in recombination rates across the human genome

4. Optimal, efficient reconstruction of root-unknown phylogenetic networks with constrained and structured recombination

5. OPTIMAL, EFFICIENT RECONSTRUCTION OF PHYLOGENETIC NETWORKS WITH CONSTRAINED RECOMBINATION

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