{"id":"W4415737693","doi":"10.1128/spectrum.02278-25","title":"Widespread emergence of <i>Staphylococcus aureus</i> with variant FarR regulators and enhanced resistance to antimicrobial fatty acids within clonal complex CC5, CC8, and CC97 strains from human and bovine hosts","year":2025,"lang":"en","type":"article","venue":"Microbiology Spectrum","topic":"Antimicrobial Resistance in Staphylococcus","field":"Medicine","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Polyphyly; Linoleic acid; Innate immune system; Antimicrobial; Antibiotic resistance; Pathogen; Fatty acid; Gene","routes":{"ca_aff":true,"ca_fund":true,"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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0002910446,0.0006067959,0.001212837,0.0003237569,0.0003177225,0.00004581828,0.0002762057,0.0003189751,0.00007750966],"category_scores_gemma":[0.0001065703,0.0005387184,0.0000876589,0.0005449641,0.001695523,0.00009758579,0.0003093341,0.0004592166,0.000003002728],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00007860441,"about_ca_system_score_gemma":0.0002193603,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002569847,"about_ca_topic_score_gemma":0.00477139,"domain_scores_codex":[0.9968829,0.0001313995,0.0008791873,0.001265866,0.0001276948,0.0007130089],"domain_scores_gemma":[0.9983691,0.0001516508,0.0003741504,0.0006865771,0.0001636439,0.0002548743],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.002161849,0.0001583595,0.02197724,0.000248012,0.0003376145,0.00007697646,0.0006366457,0.000003599818,0.9678501,0.001761906,0.00465742,0.0001302645],"study_design_scores_gemma":[0.003826891,0.0008426867,0.2293469,0.001077343,0.0002824721,0.00006577497,0.0002671297,0.000006274779,0.7611354,0.0005891567,0.001937084,0.0006228907],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9906984,0.0007797215,0.002676233,0.002910474,0.0001979987,0.001109627,0.0009764297,0.00008477207,0.0005663626],"genre_scores_gemma":[0.987387,0.0001143651,0.01020775,0.001322035,0.00008461179,0.00001900989,0.000191818,0.00005090191,0.0006224876],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.2073696,"threshold_uncertainty_score":0.9997064,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009078062810594777,"score_gpt":0.2548028387170243,"score_spread":0.2457247759064295,"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."}}