{"id":"W4410850984","doi":"10.1126/science.adt3880","title":"Attenuation of virulence in <i>Yersinia pestis</i> across three plague pandemics","year":2025,"lang":"en","type":"article","venue":"Science","topic":"Yersinia bacterium, plague, ectoparasites research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":17,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University; Canadian Institute for Advanced Research; McMaster University Medical Centre","funders":"Agence Nationale de la Recherche","keywords":"Yersinia pestis; Virulence; Plague (disease); Pandemic; Plasmid; Microbiology; Biology; Virology; Yersiniosis; Rodent; Yersinia pseudotuberculosis; Enterobacteriaceae; Infectious disease (medical specialty); Gene; Coronavirus disease 2019 (COVID-19); Disease; Escherichia coli; Genetics; Medicine; Ecology","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001759448,0.0002179264,0.0002184698,0.0001711293,0.0001192757,0.0002551905,0.0001661772,0.0001909389,0.000389504],"category_scores_gemma":[0.0002270488,0.0001034925,0.0001725931,0.0001438294,0.0001913837,0.0001901335,0.0002654798,0.0005040596,0.00009490756],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003903116,"about_ca_system_score_gemma":0.0001846094,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001036544,"about_ca_topic_score_gemma":0.001109465,"domain_scores_codex":[0.9998819,0.00001410602,0.00001157398,0.00002520343,0.00002267518,0.00004457705],"domain_scores_gemma":[0.999842,0.00001783445,0.00006100683,0.00001634721,0.00002242591,0.00004029018],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001589391,0.00003397758,0.00293445,0.00001276676,0.00000637953,0.00003878038,0.00003084405,0.00004910361,0.9951838,0.00003636585,0.00001953721,0.001495055],"study_design_scores_gemma":[0.00003736739,0.002627009,0.3321119,0.00001401079,0.0000423009,0.0007331528,0.0002364017,0.001067835,0.6615711,0.0001105785,0.001431374,0.00001691989],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9993899,0.0001159749,0.0001949721,0.00002012336,0.000002238611,0.000004783625,0.00006457198,0.00001248234,0.0001948637],"genre_scores_gemma":[0.999064,0.00009953473,0.0002895627,0.00002326832,0.000001785318,0.000007359441,0.0002328113,0.000004983989,0.0002766404],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001036544,"threshold_uncertainty_score":0.002831876,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01293293687079442,"score_gpt":0.3405463854834723,"score_spread":0.3276134486126779,"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."}}