Raw Bioinformatics Analysis Data and Phenotypic Data of Photobacterium damselae

This dataset accompanies a research manuscript currently under review (or in preparation) investigating the population genomics and pathogenic mechanisms of Photobacterium damselae, a marine pathogen comprising two subspecies: P. damselae subsp. damselae (PDD) and P. damselae subsp. piscicida (PDP). The study integrates whole-genome sequencing, comparative genomics, and population genetic analyses to elucidate the global distribution, evolutionary lineage structure, and virulence gene profiles of this species. Data Content Summary: 1. Core Genome SNP Data: A whole-genome SNP matrix derived from 250 globally collected strains, used for fineSTRUCTURE analysis and phylogenetic reconstruction, identifying six major lineages (L1–L6) with distinct geographical distributions. 2. Pan-genome and Functional Annotation: Gene presence/absence matrices and functional enrichment results highlighting subspecies-specific gene sets, particularly those involved in metabolism and transport, that differentiate PDD and PDP. 3. Genetic Marker Validation Data: Sequence alignments and phylogenetic evidence supporting the ureC gene as a reliable, novel molecular marker for rapid subspecies identification. 4. Virulence Gene Profiling: Distribution data for key virulence determinants, including: · The high-virulence-associated plasmid pPHDD1, predominantly found in lineage L1. · The low-virulence phospholipase gene colP, mainly associated with lineages L2 and L4. Scientific Relevance: This dataset provides a foundational genomic resource for understanding the epidemiology, evolution, and pathogenicity of P. damselae. It reveals lineage-dependent virulence patterns and supports future studies in diagnostics, surveillance, and molecular mechanism research. Data Availability Statement: These data are shared in accordance with journal data-sharing policies prior to manuscript publication. For inquiries regarding the manuscript or data usage, please contact the corresponding author at:[e-mail].