{"id":"W4386317459","doi":"10.1371/journal.pbio.3002253","title":"The microbiota conditions a gut milieu that selects for wild-type Salmonella Typhimurium virulence","year":2023,"lang":"en","type":"article","venue":"PLoS Biology","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Botnar Research Centre for Child Health, University of Basel; Gebert Rüf Stiftung; Boehringer Ingelheim Fonds; Geschwister Boehringer Ingelheim Stiftung für Geisteswissenschaften; Cree Board of Health and Social Services of James Bay; Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung; National Science Foundation","keywords":"Virulence; Biology; Microbiology; Pathogen; Mutant; Colonisation resistance; Pathogenicity island; Gut flora; Salmonella; Colonization; Phenotype; Bacteria; Genetics; Gene; Immunology","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001353148,0.0004286742,0.0003108487,0.0002281188,0.0001488012,0.0005077443,0.0001358418,0.0003889487,0.00104236],"category_scores_gemma":[0.0001905049,0.0002204585,0.0002228615,0.0001029101,0.0004248198,0.0002350686,0.0005216149,0.0007740732,0.0003223391],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002424135,"about_ca_system_score_gemma":0.0003539596,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0003787511,"about_ca_topic_score_gemma":0.0007107801,"domain_scores_codex":[0.9996995,0.00005566245,0.00002373081,0.00004942645,0.00007023635,0.0001015725],"domain_scores_gemma":[0.9997674,0.0000158861,0.00007545084,0.00002768089,0.00001355422,0.0001000379],"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":[0.00009445272,0.00003149104,0.0004185778,0.00001872994,0.000003135378,0.00005275498,0.00001013018,0.00003260898,0.9988555,0.0000725684,0.00001843462,0.0003916848],"study_design_scores_gemma":[0.00005455312,0.002761715,0.02872796,0.00004206503,0.00004808212,0.001358685,0.0002326988,0.001333597,0.9622357,0.0003416357,0.002832192,0.00003111487],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.996196,0.0004355464,0.001725894,0.0001110169,0.0000334978,0.0000255635,0.0001533781,0.00009844545,0.001220602],"genre_scores_gemma":[0.9964972,0.0003202169,0.001952314,0.00008919756,0.00001308274,0.0000254822,0.0001637646,0.00002435481,0.0009144501],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00104236,"threshold_uncertainty_score":0.003487051,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02959105459257533,"score_gpt":0.3036266434234058,"score_spread":0.2740355888308305,"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."}}