ArticleScientific reports2019
Complete mitochondrial genomes from transcriptomes: assessing pros and cons of data mining for assembling new mitogenomes.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- EZmito2: a tool suite for mitochondrial genome dataset preparation, population genetics, and visualization.Molecular biology and evolution · 2026Article
- Mitogenomic insights into the deep-sea penaeid shrimp, Aristeus alcocki Ramadan, 1938.Molecular biology reports · 2026Article
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- Mitochondrial genomes from RNA-Seq reveal phylogeny and selection in Mepraia (Hemiptera: Reduviidae).Molecular genetics and genomics : MGG · 2026Article
- Mosaic phenotypic evolution underlies the adaptive success of water-surface colonization in Gerromorpha.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Extended taxon sampling reveals conflicting mitochondrial phylogenomics in the holarctic Reticulitermes termites (Blattodea: Termitoidae).Journal of insect science (Online) · 2025Article
- Mitochondrial Genome Variations and Possible Adaptive Implications in Some Tephritid Flies (Diptera, Tephritidae).International journal of molecular sciences · 2025Article
- Coupled evolutionary rates shape a Hawaiian insect-symbiont system.BMC genomics · 2025Article
- Enhanced dynamicity: evolutionary insights into amphibian mitogenomes architecture.BMC genomics · 2025Article
- Role of public DNA-Seq data in mitogenomics research: A case study on the flying fish family (Beloniformes: Exocoetidae).Journal of biosciences · 2025Article
- Insect Phylogenomics: From Experiment Planning to Post-phylogenetic Analyses.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Whole-mitogenome analysis unveils previously undescribed genetic diversity in cane toads across their invasion trajectory.Ecology and evolution · 2024Article
- In silico prospecting of the mtDNA of Macrobrachium amazonicum from transcriptome data.BMC genomics · 2023Article
- Maturases and Group II Introns in the Mitochondrial Genomes of the Deepest Jakobid Branch.Genome biology and evolution · 2023Article
- Article
- Experimental Crossing Confirms Reproductive Isolation between Cryptic Species withinInternational journal of molecular sciences · 2022Article
- The complete mitochondrial genome of an endemic cichlid Etroplus canarensis from Western Ghats, India (Perciformes: Cichlidae) and molecular phylogenetic analysis.Molecular biology reports · 2022Article
- Mitonuclear Coevolution, but not Nuclear Compensation, Drives Evolution of OXPHOS Complexes in Bivalves.Molecular biology and evolution · 2021Article
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7 authors.
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Abstract
Thousands of eukaryotes transcriptomes have been generated, mainly to investigate nuclear genes expression, and the amount of available data is constantly increasing. A neglected but promising use of this large amount of data is to assemble organelle genomes. To assess the reliability of this approach, we attempted to reconstruct complete mitochondrial genomes from RNA-Seq experiments of Reticulitermes termite species, for which transcriptomes and conspecific mitogenomes are available. We successfully assembled complete molecules, although a few gaps corresponding to tRNAs had to be filled manually. We also reconstructed, for the first time, the mitogenome of Reticulitermes banyulensis. The accuracy and completeness of mitogenomes reconstruction appeared independent from transcriptome size, read length and sequencing design (single/paired end), and using reference genomes from congeneric or intra-familial taxa did not significantly affect the assembly. Transcriptome-derived mitogenomes were found highly similar to the conspecific ones obtained from genome sequencing (nucleotide divergence ranging from 0% to 3.5%) and yielded a congruent phylogenetic tree. Reads from contaminants and nuclear transcripts, although slowing down the process, did not result in chimeric sequence reconstruction. We suggest that the described approach has the potential to increase the number of available mitogenomes by exploiting the rapidly increasing number of transcriptomes.
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