ArticleHeredity2022
Comparative mitogenomics of Clupeoid fish provides insights into the adaptive evolution of mitochondrial oxidative phosphorylation (OXPHOS) genes and codon usage in the heterogeneous habitats.
Article in Heredity, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed, 18 citations in OpenAlex.
- Mitogenomic Insights into the Tinfoil Barb Barbonymus schwanefeldii from Sumatra, Indonesia: Structural Features, Selective Pressure, Genetic Diversity, and Phylogenetic Placement.Journal of molecular evolution · 2026Article
- Mitogenomic Architecture and Phylogenetic Insights Shed Light on the Matrilineal Evolution of the Mahseer Fish Neolissochilus sumatranus (Cyprinidae: Torinae) in Southeast Asia.Biochemical genetics · 2026Article
- Characterization of Three Complete Mitochondrial Genomes ofInternational journal of molecular sciences · 2026Article
- Novel Mitogenome ofInternational journal of molecular sciences · 2026Article
- Natural Selection Drives AT-Biased Codon Usage in Mitochondrial Genomes of Early-DivergingJournal of fungi (Basel, Switzerland) · 2026Article
- Genomic Insights and Matrilineal Evolution Reveal Potential Dispersal Patterns ofEcology and evolution · 2026Article
- Uncovering evolutionary and phylogenetic relationships in Glyptothorax species through comparative mitochondrial genomics.Journal, genetic engineering & biotechnology · 2026Article
- Assembly, Characterization, and Phylogenetic Insights from the Complete Mitochondrial Genome ofBiology · 2026Article
- Complete Mitochondrial Genome of the Araucanian Herring,Ecology and evolution · 2025Article
- Complete mitochondrial genome of Labeo fimbriatus (fringe-lipped carp) and insights into its evolutionary relationships within the genus Labeo.Molecular biology reports · 2025Article
- Analysis of the Entire Mitogenome of the Threatened Freshwater StingrayInternational journal of molecular sciences · 2025Article
- Genetic Characteristics and Phylogenetic Relationships of 18 Anchovy Species Based on Mitochondrial Genomes in the Seas Around China.Ecology and evolution · 2025Article
- Mitogenome of Neolissochilus pnar, the largest cavernicolous species of Mahseer.Scientific reports · 2025Article
- The mitochondrial genomes of Iberian freshwater and diadromous fishes.Scientific data · 2025Article
- Mitochondrial genomes of the European sardine (Sardina pilchardus) reveal Pliocene diversification, extensive gene flow and pervasive purifying selection.Scientific reports · 2024Article
- A Comprehensive Analysis of theGenes · 2023Article
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3 authors at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Clupeoid fish can be considered excellent candidates to understand the role of mitochondrial DNA in adaptive evolution, as they have colonized different habitats (marine, brackish, freshwater, tropical and temperate regions) over millions of years. Here, we investigate patterns of tRNA location, codon usage bias, and lineage-specific diversifying selection signals to provide novel insights into how evolutionary improvements of mitochondrial metabolic efficiency have allowed clupeids to adapt to different habitats. Based on whole mitogenome data of 70 Clupeoids with a global distribution we find that purifying selection was the dominant force acting and that the mutational deamination pressure in mtDNA was stronger than the codon/amino acid constraints. The codon usage pattern appears evolved to achieve high translational efficiency (codon/amino acid-related constraints), as indicated by the complementarity of most codons to the GT-saturated tRNA anticodon sites (retained by deamination-induced pressure) and usage of the codons of the tRNA genes situated near to the control region (fixed by deamination pressure) where transcription efficiency was high. The observed shift in codon preference patterns between marine and euryhaline/freshwater Clupeoids indicates possible selection for improved translational efficiency in mitochondrial genes while adapting to low-salinity habitats. This mitogenomic plasticity and enhanced efficiency of the metabolic machinery may have contributed to the evolutionary success and abundance of Clupeoid fish.
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