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.