{"id":"W4410943837","doi":"10.1080/20477724.2025.2513769","title":"Coriander borne <i>Salmonella</i> superbug: genomic assessments of chromosomal and plasmid-associated resistance, virulence and MGEs of XDR <i>Salmonella</i> enterica Typhi NH1","year":2025,"lang":"en","type":"article","venue":"Pathogens and Global Health","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"","keywords":"Salmonella enterica; Salmonella typhi; Virulence; Plasmid; Salmonella; Biology; Microbiology; Genetics; Genomic island; Foodborne pathogen; Virology; Gene; Bacteria; Escherichia coli","routes":{"ca_aff":true,"ca_fund":false,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0005249163,0.0002424943,0.0007122151,0.00001970843,0.0001977301,0.00002214845,0.0001514388,0.0001744832,0.00001517312],"category_scores_gemma":[0.0000549684,0.0001288903,0.00006832618,0.0003533409,0.000285834,0.00005812978,0.0001756576,0.0001081716,8.513462e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006314606,"about_ca_system_score_gemma":0.00006028769,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006634598,"about_ca_topic_score_gemma":0.0008004484,"domain_scores_codex":[0.9979812,0.000275966,0.0006073605,0.0005314382,0.0001549532,0.0004491139],"domain_scores_gemma":[0.9990031,0.0002884445,0.0003223527,0.00009927463,0.00008859959,0.0001982387],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0004384751,0.0003253834,0.8641323,0.0003039497,0.000123101,0.00001092681,0.0001118782,0.000002498625,0.1078567,0.001978478,0.00242627,0.02229011],"study_design_scores_gemma":[0.0005783336,0.0005704422,0.9924585,0.0001663013,0.00004155533,0.00001496025,0.0002770618,0.00005613134,0.0003772703,0.002350728,0.002914648,0.0001940402],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9879039,0.008554218,0.00001632037,0.00103138,0.0001604047,0.0002621382,0.0008606641,0.00002725788,0.001183702],"genre_scores_gemma":[0.9902579,0.008528523,0.0001927893,0.0007958839,0.00004041002,0.000007785541,0.00006050008,0.000001864734,0.0001143686],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.1283263,"threshold_uncertainty_score":0.5255994,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01272995882868364,"score_gpt":0.2832849499141912,"score_spread":0.2705549910855076,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}