ArticleGenome research2005
Genomic deletions and precise removal of transposable elements mediated by short identical DNA segments in primates.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
54 citing papers in PubMed, 126 citations in OpenAlex.
- Chromatin unfolding via loops can drive clustered transposon insertion.Biophysical journal · 2025Article
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- Transposable elements that have recently been mobile in the human genome.BMC genomics · 2021Article
- A bird-like genome from a frog: Mechanisms of genome size reduction in the ornate burrowing frog,Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Alu element in the RNA binding motif protein, X-linked 2 (RBMX2) gene found to be linked to bipolar disorder.PloS one · 2021Article
- Successful Invasions of Short Internally Deleted Elements (SIDEs) and Its Partner CR1 in Lepidoptera Insects.Genome biology and evolution · 2019Article
- Evidence for convergent evolution of SINE-directed Staufen-mediated mRNA decay.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Lineage-independent retrotransposition of UTP14 associated with male fertility has occurred multiple times throughout mammalian evolution.Royal Society open science · 2017Article
- Resolving kangaroo phylogeny and overcoming retrotransposon ascertainment bias.Scientific reports · 2017Article
- Phylogenetic Conflict in Bears Identified by Automated Discovery of Transposable Element Insertions in Low-Coverage Genomes.Genome biology and evolution · 2017Article
- Insertionally polymorphic sites of human endogenous retrovirus-K (HML-2) with long target site duplications.BMC genomics · 2017Article
- Dynamics of genome size evolution in birds and mammals.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Insertion and deletion polymorphisms of the ancientMobile DNA · 2017Article
- Dynamics of a Novel Highly Repetitive CACTA Family in Common Bean (Phaseolus vulgaris).G3 (Bethesda, Md.) · 2016Article
- Incomplete Lineage Sorting and Hybridization Statistics for Large-Scale Retroposon Insertion Data.PLoS computational biology · 2016Article
- Accurate Transposable Element Annotation Is Vital When Analyzing New Genome Assemblies.Genome biology and evolution · 2016Article
- Discovery and characterization of Alu repeat sequences via precise local read assembly.Nucleic acids research · 2015Article
- Targeted Capture of Phylogenetically Informative Ves SINE Insertions in Genus Myotis.Genome biology and evolution · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Insertion of transposable elements is a major cause of genomic expansion in eukaryotes. Less is understood, however, about mechanisms underlying contraction of genomes. In this study, we show that retroelements can, in rare cases, be precisely deleted from primate genomes, most likely via recombination between 10- to 20-bp target site duplications (TSDs) flanking the retroelement. The deleted loci are indistinguishable from pre-integration sites, effectively reversing the insertion. Through human-chimpanzee-Rhesus monkey genomic comparisons, we estimate that 0.5%-1% of apparent retroelement "insertions" distinguishing humans and chimpanzees actually represent deletions. Furthermore, we demonstrate that 19% of genomic deletions of 200-500 bp that have occurred since the human-chimpanzee divergence are associated with flanking identical repeats of at least 10 bp. A large number of deletions internal to Alu elements were also found flanked by homologies. These results suggest that illegitimate recombination between short direct repeats has played a significant role in human genome evolution. Moreover, this study lends perspective to the view that insertions of retroelements represent unidirectional genetic events.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.