{"id":"W3016623328","doi":"10.3390/microorganisms8040576","title":"Salmonella Pathogenicity Island 1 (SPI-1): The Evolution and Stabilization of a Core Genomic Type Three Secretion System","year":2020,"lang":"en","type":"article","venue":"Microorganisms","topic":"Salmonella and Campylobacter epidemiology","field":"Agricultural and Biological Sciences","cited_by":68,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Regina","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Pathogenicity island; Biology; Effector; Genetics; Gene; Type three secretion system; Horizontal gene transfer; Genome; Genomic island; Promoter; Cell biology; Virulence; Gene expression","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":[],"consensus_categories":[],"category_scores_codex":[0.0002172535,0.0001061546,0.0001835064,0.000004585966,0.0001221891,0.00001530371,0.0001444313,0.0001039814,0.00007714001],"category_scores_gemma":[0.00005301294,0.00003945112,0.00004092194,0.0002239203,0.00007978635,0.00003322862,0.00007406965,0.00007458436,0.00002029145],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003913286,"about_ca_system_score_gemma":0.00001073107,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002340884,"about_ca_topic_score_gemma":0.0003899278,"domain_scores_codex":[0.9992115,0.0001027731,0.0002306978,0.0002350372,0.00007428704,0.0001457321],"domain_scores_gemma":[0.9995817,0.0001028127,0.0001352455,0.00005517155,0.00006837922,0.00005670595],"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":[0.00003972072,0.000008031254,0.08770873,0.00001670451,0.000007663418,6.279089e-7,0.0001800832,0.000006317085,0.9106189,0.0005268459,0.00009660269,0.0007897673],"study_design_scores_gemma":[0.0002343744,0.0006555192,0.9786883,0.0000211833,0.00005790486,0.00004070086,0.001606836,0.001977579,0.01475417,0.0008562601,0.0008981846,0.0002090051],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.99779,0.0006650541,0.0004751788,0.0005878312,0.00008452287,0.0002303304,0.00004814968,0.0000436678,0.00007525844],"genre_scores_gemma":[0.9995066,0.00003485067,0.0000427711,0.0001917077,0.0001518232,0.000002530817,0.00005969905,0.000001597252,0.000008457021],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8958647,"threshold_uncertainty_score":0.160877,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02838522513216308,"score_gpt":0.2029449980421272,"score_spread":0.1745597729099641,"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."}}