Data on mitochondrial genome rearrangement patterns, annotation resources, and phylogenetic visualization in Actinopteri (ray-finned fishes)

This dataset integrates structural variations, annotation resources, and phylogenetic analysis results of mitochondrial genomes in ray-finned fishes (Actinopterygii). The raw data were sourced from publicly available mitochondrial genome records in NCBI GenBank (0_gb_actinopteri_14092_from_NCBI.gb), comprising 14,092 original sequences. Standardized annotations were generated using the MITOS online tool, resulting in a compressed package (1_fasta_bed_actinopteri.zip) containing FASTA sequences and BED annotation files, which can be imported into Geneious software for visualizing gene structures and boundaries. For cases where discrepancies were found between NCBI annotations and MITOS results, a Geneious-formatted validation file (2_geneious_alignment_validation_files.geneious) is provided, including manually corrected alignment evidence. The final compiled CSV file systematically organizes taxonomic information, gene rearrangement patterns (e.g., ND5-ND6 inversion clusters, tRNA translocations), and their associations with order/family-level phylogenetic branches for 10,664 genomes. Additionally, a visualization file (4_Fish-phy.png) is included, displaying the distribution of gene rearrangement events on a phylogenetic tree for intuitive interpretation.

This dataset is suitable for studies on mitochondrial genome structural evolution, annotation pipeline validation, comparative genomics, and molecular phylogenetic analysis. All data comply with NCBI GenBank usage terms, involve no ethical concerns.