ArticleNucleic acids research2012
Mammalian NUMT insertion is non-random.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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Who cites it
64 citing papers in PubMed.
- MitoNumt: A Workflow for Recovering Mitochondrial Genomes From Long-Read Data and Detecting NUMT Contamination in Mitochondrial Genome Assemblies.Molecular ecology resources · 2026Article
- Evolutionary persistence of a highly prevalent multicopy mitochondrial-derived nuclear insertion (Mega-NUMT) in Neotropical Drosophila flies.Molecular biology and evolution · 2026Article
- Benchmarking genome choice in functional genomics analyses.Nature communications · 2026Article
- A long-read human pangenome initiative for comprehensive interpretation of nuclear-embedded mitochondrial DNA.Nature communications · 2026Article
- SwarmGenomics: A Unified Pipeline for Individual-Based Whole-Genome Analyses.Molecular ecology resources · 2026Article
- Article
- Insights into Nuclear Mitochondrial Sequence Distribution in the Pig Genome Based on the Latest Reference Assembly.Animals : an open access journal from MDPI · 2026Article
- Mitochondrial Impostors: Prevalence and Impacts of NUMTs on Genetic and Evolutionary Studies in Carnivora.Genome biology and evolution · 2025Article
- Genomes of nitrogen-fixing eukaryotes reveal an alternate path for organellogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Diverse evolutionary trajectories of mitocoding DNA in mammalian and avian nuclear genomes.Genome research · 2025Article
- MANUDB: database and application to retrieve and visualize mammalian NUMTs.Database : the journal of biological databases and curation · 2025Article
- Repeat-Rich Regions Cause False-Positive Detection of NUMTs: A Case Study in Amphibians Using an Improved Cane Toad Reference Genome.Genome biology and evolution · 2024Article
- Article
- A comprehensive atlas of nuclear sequences of mitochondrial origin (NUMT) inserted into the pig genome.Genetics, selection, evolution : GSE · 2024Article
- Characterization and trans-generation dynamics of mitogene pool in the silver carp (Hypophthalmichthys molitrix).G3 (Bethesda, Md.) · 2024Article
- Article
- Nuclear sequences of mitochondrial origin in domestic yak.Scientific reports · 2024Article
- Mitochondrial genome plasticity of mammalian species.BMC genomics · 2024Article
- The Mighty NUMT: Mitochondrial DNA Flexing Its Code in the Nuclear Genome.Biomolecules · 2023Review
- Extensive mitogenomic heteroplasmy and its implications in the phylogeny of the fish genus3 Biotech · 2023Article
4 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is well known that remnants of partial or whole copies of mitochondrial DNA, known as Nuclear MiTochondrial sequences (NUMTs), are found in nuclear genomes. Since whole genome sequences have become available, many bioinformatics studies have identified putative NUMTs and from those attempted to infer the factors involved in NUMT creation. These studies conclude that NUMTs represent randomly chosen regions of the mitochondrial genome. There is less consensus regarding the nuclear insertion sites of NUMTs - previous studies have discussed the possible role of retrotransposons, but some recent ones have reported no correlation or even anti-correlation between NUMT sites and retrotransposons. These studies have generally defined NUMT sites using BLAST with default parameters. We analyze a redefined set of human NUMTs, computed with a carefully considered protocol. We discover that the inferred insertion points of NUMTs have a strong tendency to have high-predicted DNA curvature, occur in experimentally defined open chromatin regions and often occur immediately adjacent to A + T oligomers. We also show clear evidence that their flanking regions are indeed rich in retrotransposons. Finally we show that parts of the mitochondrial genome D-loop are under-represented as a source of NUMTs in primate evolution.
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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.