{"id":"W2952882858","doi":"10.1099/mgen.0.000133","title":"Phylogeographic separation and formation of sexually discrete lineages in a global population of Yersinia pseudotuberculosis","year":2017,"lang":"en","type":"article","venue":"Microbial Genomics","topic":"Yersinia bacterium, plague, ectoparasites research","field":"Biochemistry, Genetics and Molecular Biology","cited_by":14,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Trent University; European Defence Agency; Nottingham Trent University; Helsingin Yliopisto","keywords":"Yersinia pseudotuberculosis; Biology; Population; Phylogeography; Evolutionary biology; Yersinia; Lineage (genetic); Genetics; Biological dispersal; Population genomics; Comparative genomics; Genomics; Genome; Phylogenetics; Gene; Virulence; Bacteria","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001830262,0.00009540403,0.0001587064,0.00006198994,0.00006982118,0.00003821049,0.0001583213,0.0001306244,0.000001946821],"category_scores_gemma":[0.00005789143,0.0001044303,0.00004620965,0.00005238796,0.0001047408,0.00002078217,0.0001223183,0.00004812395,7.807683e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00002865524,"about_ca_system_score_gemma":0.00003421781,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004210802,"about_ca_topic_score_gemma":0.001271974,"domain_scores_codex":[0.9993007,0.00004450183,0.000268182,0.0001822194,0.0000641944,0.0001402724],"domain_scores_gemma":[0.9993822,0.000005665873,0.0002201664,0.0002824144,0.00007783848,0.00003172203],"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":[0.0001667532,0.00002443142,0.1866558,0.00004847049,0.00001413801,3.505279e-7,0.00008451624,0.00007567645,0.8121161,0.000009752634,0.00002284033,0.0007811517],"study_design_scores_gemma":[0.0006836102,0.0001871795,0.7125959,0.00002138655,0.00001603794,0.00001109986,0.00003870247,0.0004525901,0.2856853,0.00003125513,0.0001582349,0.0001187168],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9991168,0.0001068911,0.000197929,0.0000624322,0.00004731984,0.0002000309,0.0001544116,0.000002069057,0.0001120927],"genre_scores_gemma":[0.9986353,0.00015343,0.000802814,0.00001196177,0.00004359954,0.000002653567,0.0003282988,0.000007445791,0.00001452123],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5264308,"threshold_uncertainty_score":0.4258545,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009886683649280054,"score_gpt":0.2998115613193984,"score_spread":0.2899248776701183,"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."}}