gcPathogen 2.0: an expanded multi-omics database advancing global pathogen surveillance and One Health research.

gcPathogen 2.0 expands genomic surveillance coverage from 1134 to 1506 pathogenic species, totaling over 2.3 million genomic records across 557 bacteria, 508 fungi, 258 viruses, and 183 parasites.

• Why it matters: It targets analytical bottlenecks in linking gene carriage to functional expression and in tracking how pathogens and resistance determinants move across habitats for One Health risk assessment.
• What they did: The update adds 12 597 transcriptomes across 148 species, integrates 285 925 pathogen MAGs mapped to 68 ENVO habitats, and performs large-scale AMP discovery using a nonredundant reference set from seven public databases.
• The result: It identifies over 77 million AMPs in more than 55 000 families across 438 bacterial pathogens and enables cross-habitat tracking of ARGs, VFs, and MGEs for surveillance and functional inference.

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