{"id":"W4402412060","doi":"10.1128/iai.00314-24","title":"Pathogenic diversification of the gut commensal <i>Providencia alcalifaciens</i> via acquisition of a second type III secretion system","year":2024,"lang":"en","type":"article","venue":"Infection and Immunity","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"BC Children's Hospital; University of British Columbia","funders":"National Institute of General Medical Sciences; Genentech; National Institutes of Health; National Institute of Allergy and Infectious Diseases; Washington State University","keywords":"Biology; Microbiology; Shigella flexneri; Type three secretion system; Shigella; Virulence; Secretion; Salmonella enterica; Vacuole; Effector; Cell biology; Salmonella; Gene; Genetics; Bacteria; Escherichia coli; Cytoplasm","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":[0.00009605157,0.0003841518,0.0001620515,0.0001760901,0.0001494074,0.0003572042,0.000151146,0.0003335541,0.0008765202],"category_scores_gemma":[0.0001249141,0.00007379548,0.0003143687,0.0001111055,0.0001480995,0.0001571291,0.0002953663,0.0003043866,0.0002646513],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001905601,"about_ca_system_score_gemma":0.0001765979,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001506079,"about_ca_topic_score_gemma":0.001038074,"domain_scores_codex":[0.9998496,0.00002493825,0.00001207056,0.00002895704,0.00003431513,0.00005016653],"domain_scores_gemma":[0.9998889,0.0000112991,0.00004001113,0.00001563282,0.0000208527,0.00002329955],"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":[0.00007228595,0.00001662282,0.0008767128,0.00002048338,0.000002586258,0.0001270543,0.0000115622,0.00001041211,0.9982058,0.00002682837,0.00004870891,0.000581037],"study_design_scores_gemma":[0.00003314588,0.001193851,0.0959978,0.00002321976,0.00005274216,0.005453384,0.0003232798,0.0008780712,0.8904542,0.0001041443,0.005463795,0.00002242316],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9969441,0.0005118519,0.0008693888,0.0001147611,0.00001469088,0.00001869069,0.0003162014,0.00007265161,0.001137531],"genre_scores_gemma":[0.9976444,0.0001844704,0.001060987,0.00005846926,0.000009830875,0.00001248043,0.0004024503,0.000009268498,0.0006175441],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001506079,"threshold_uncertainty_score":0.002994657,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01249721622184401,"score_gpt":0.2549570524290519,"score_spread":0.2424598362072078,"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."}}