ArticleGenome biology and evolution2021
Sharp Increase of Problematic Mitogenomes of Birds: Causes, Consequences, and Remedies.
Article in Genome biology and evolution, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 58 citations in OpenAlex.
- Mitochondrial Phylogenomics and Genome Evolution in Anura: Insights From Structure and Gene Order Rearrangements.Ecology and evolution · 2026Article
- Contamination of Consensus Sequences in Next-Generation Mitogenomics: The Published Mitochondrial Genome ofGenes · 2026Article
- VoronaGasyCodes: A Public Database of Mitochondrial Barcodes for Malagasy Birds.Molecular ecology resources · 2025Article
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- Diverse evolutionary trajectories of mitocoding DNA in mammalian and avian nuclear genomes.Genome research · 2025Article
- Enhanced dynamicity: evolutionary insights into amphibian mitogenomes architecture.BMC genomics · 2025Article
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- Clarifying species boundaries between bocachico (Frontiers in genetics · 2025Article
- The complete mitochondrial genome ofMitochondrial DNA. Part B, Resources · 2025Article
- Characterization of the complete mitochondrial genome and phylogenetic analysis of the Southern giant petrel (Mitochondrial DNA. Part B, Resources · 2025Article
- The Development of DNA Markers to Resolve Uncertainties of Seabird Bycatch Identification From Longline Fisheries in Australian Waters.Ecology and evolution · 2024Article
- SturnidaeAnimals : an open access journal from MDPI · 2024Article
- A comprehensive atlas of nuclear sequences of mitochondrial origin (NUMT) inserted into the pig genome.Genetics, selection, evolution : GSE · 2024Article
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- The published complete mitochondrial genome of Blue-fronted Redstart (Mitochondrial DNA. Part B, Resources · 2024Article
- First complete mitochondrial genome of the Alashan ground squirrel (Mitochondrial DNA. Part B, Resources · 2024Article
- Complete mitochondrial genome MK992912 of Great Knot (Mitochondrial DNA. Part B, Resources · 2024Article
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- Identification and phylogenetic analysis inZooKeys · 2023Article
- The published complete mitochondrial genome of Spotted Greenshank (Mitochondrial DNA. Part B, Resources · 2023Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Authentic DNA sequences are crucial for reliable evolutionary inference. Concerns about the identification of DNA sequences have been voiced several times in the past but few quantitative studies exist. Mitogenomes play important roles in phylogenetics, phylogeography, population genetics, and DNA identification. However, the large number of mitogenomes being published routinely, often in brief data papers, has raised questions about their authenticity. In this study, we quantify problematic mitogenomes of birds and their reusage in other papers. Of 1,876 complete or partial mitogenomes of birds published until January 1, 2020, the authenticity of 1,559 could be assessed with sequences of conspecifics. Of these, 78 (5.0%) were found to be problematic, including 45 curated reference sequences. Problems were due to misidentification (33), chimeras of two or three species (23), sequencing errors/numts (18), incorrect sequence assembly (1), mislabeling at GenBank but not in the final paper (2), or vice versa (1). The number of problematic mitogenomes has increased sharply since 2012. Worryingly, these problematic sequences have been reused 436 times in other papers, including 385 times in phylogenies. No less than 53% of all mitogenomic phylogenies/networks published until January 1, 2020 included at least one problematic mitogenome. Problematic mitogenomes have resulted in incorrect phylogenetic hypotheses and proposals for unwarranted taxonomic revision, and may have compromised comparative analyses and measurements of divergence times. Our results indicate that a major upgrade of quality control measures is warranted. We propose a comprehensive set of measures that may serve as a new standard for publishing mitogenome sequences.
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