ArticleNucleic acids research2014
Multiplex sequencing of pooled mitochondrial genomes-a crucial step toward biodiversity analysis using mito-metagenomics.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 138 papers.
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138 citing papers in PubMed.
- Comparative Mitogenomics Reveals Gene Rearrangement and Phylogenetic Relationships in Siphlonuroidea (Insecta: Ephemeroptera).Insects · 2026Article
- Mitogenomic Characterization and Phylogenetic Expansion of Tribe Coccinellini (Coleoptera: Coccinellidae).Ecology and evolution · 2026Article
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- Characterization and Phylogenomic Implications of the Mitochondrial Genome ofEcology and evolution · 2026Article
- Re-Examination: No TrueInsects · 2026Article
- Complete mitochondrial genome ofMitochondrial DNA. Part B, Resources · 2026Article
- Complete mitochondrial genome of the euonymus defoliator moth,Mitochondrial DNA. Part B, Resources · 2026Article
- Complete mitochondrial genome sequence ofMitochondrial DNA. Part B, Resources · 2026Article
- The first complete mitochondrial genome sequences of an ancient orphan evolutionary lineage of Eumolpinae leaf beetles endemic to the South Pacific.BMC genomics · 2025Article
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- Complete Mitochondrial Genome of TwoGenes · 2025Article
- The first complete mitochondrial genome sequences of the crimson rose (Pachliopta hector) (Papilionidae: Troidini) and phylogenetic analysis.Molecular biology reports · 2025Article
- Complete mitochondrial genome data and phylogenetic analysis of the Plain Banded Awl,Mitochondrial DNA. Part B, Resources · 2025Article
- The complete mitochondrial genome ofMitochondrial DNA. Part B, Resources · 2025Article
- The Complete Mitochondrial Genome of Chilo infuscatellus (Lepidoptera: Pyralidae), and Related Phylogenetic Analysis.Biochemical genetics · 2024Article
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- Endemic Radiation of African Moonfish,Biomolecules · 2024Article
- Drawing mitochondrial genomes with circularMT.Bioinformatics (Oxford, England) · 2024Article
- Complete Mitochondrial Genomes and Phylogenetic Analysis of GenusInternational journal of molecular sciences · 2024Article
78 more citing papers are in PubMed but not listed here.
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11 authors.
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Abstract
The advent in high-throughput-sequencing (HTS) technologies has revolutionized conventional biodiversity research by enabling parallel capture of DNA sequences possessing species-level diagnosis. However, polymerase chain reaction (PCR)-based implementation is biased by the efficiency of primer binding across lineages of organisms. A PCR-free HTS approach will alleviate this artefact and significantly improve upon the multi-locus method utilizing full mitogenomes. Here we developed a novel multiplex sequencing and assembly pipeline allowing for simultaneous acquisition of full mitogenomes from pooled animals without DNA enrichment or amplification. By concatenating assemblies from three de novo assemblers, we obtained high-quality mitogenomes for all 49 pooled taxa, with 36 species >15 kb and the remaining >10 kb, including 20 complete mitogenomes and nearly all protein coding genes (99.6%). The assembly quality was carefully validated with Sanger sequences, reference genomes and conservativeness of protein coding genes across taxa. The new method was effective even for closely related taxa, e.g. three Drosophila spp., demonstrating its broad utility for biodiversity research and mito-phylogenomics. Finally, the in silico simulation showed that by recruiting multiple mito-loci, taxon detection was improved at a fixed sequencing depth. Combined, these results demonstrate the plausibility of a multi-locus mito-metagenomics approach as the next phase of the current single-locus metabarcoding method.
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