ArticleMolecular biology and evolution2010
Recombination-associated sequence homogenization of neighboring Alu elements: signature of nonallelic gene conversion.
Article in Molecular biology and evolution, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed, 13 citations in OpenAlex.
- Recursive Ectopic Gene Conversion Leads to Elevated DNA Mutation, Gene Loss, and Novel Gene Formation inMicroorganisms · 2025Article
- Gene Conversion amongstGenes · 2021Article
- A single mutation in the ACTR8 gene associated with lineage-specific expression in primates.BMC evolutionary biology · 2020Article
- Structural variation and its potential impact on genome instability: Novel discoveries in the EGFR landscape by long-read sequencing.PloS one · 2020Article
- The Role of Gene Conversion between Transposable Elements in Rewiring Regulatory Networks.Genome biology and evolution · 2019Review
- Population-specific differences in gene conversion patterns between human SUZ12 and SUZ12P are indicative of the dynamic nature of interparalog gene conversion.Human genetics · 2014Article
- Article
- Discovery of highly divergent repeat landscapes in snake genomes using high-throughput sequencing.Genome biology and evolution · 2011Article
- Significant selective constraint at 4-fold degenerate sites in the avian genome and its consequence for detection of positive selection.Genome biology and evolution · 2011Article
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
Abstract
Recently, researchers have begun to recognize that, in order to establish neutral models for disease association and evolutionary genomics studies, it is crucial to have a clear understanding of the genomic impact of nonallelic gene conversion. Drawing on previous successes in characterizing this phenomenon over protein-coding gene families, we undertook a computational analysis of neighboring Alu sequences in the genome scale. For this purpose, we developed adjusted comutation rate (aCMR), a novel statistical method measuring the excess number of identical point mutations shared by adjacent Alu sequences, vis-à-vis random pairs. Using aCMR, we uncovered a remarkable genome-wide sequence homogenization of neighboring Alus, with the strongest signal observed in the pseudoautosomal regions of the X and Y chromosomes. The magnitude of sequence homogenization between Alu pairs is greater with shorter interlocus distance, higher sequence identity, and parallel orientation. Moreover, shared substitutions show a strong directionality toward GC nucleotides, with multiple substitutions tending to cluster within the Alu sequence. Taken together, these observed recombination-associated sequence homogenization patterns are best explained by frequent ubiquitous gene conversion events between neighboring Alus. We believe that these observations help to illuminate the nature and impact of the enigmatic phenomenon of gene conversion.
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