{"id":"W4413113213","doi":"10.1093/femsyr/foaf037","title":"Taxogenomic analysis of <i>Pichia senei</i> sp. nov. and new insights into hybridization events in the <i>Pichia cactophila</i> species complex","year":2025,"lang":"en","type":"article","venue":"FEMS Yeast Research","topic":"Plant Pathogens and Fungal Diseases","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Great Lakes Bioenergy Research Center; Applied Molecular Biosciences Unit; National Institute of Food and Agriculture; Fundação de Amparo à Pesquisa do Estado de Minas Gerais; Conselho Nacional de Desenvolvimento Científico e Tecnológico; Office of Science; U.S. Department of Agriculture; Fundação para a Ciência e a Tecnologia; U.S. Department of Energy; National Science Foundation","keywords":"Biology; Pichia; Evolutionary biology; Zoology; Computational biology; Pichia pastoris; Genetics; Recombinant DNA; Gene","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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003292141,0.0001155925,0.0002003225,0.0003534445,0.0001166226,0.00002836914,0.0002931743,0.00007382745,0.00001525655],"category_scores_gemma":[0.0001058289,0.00008981286,0.00008467559,0.0009864382,0.0001100462,0.000005236936,0.0001912376,0.0001225519,0.000003439802],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001889211,"about_ca_system_score_gemma":0.0001759793,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005268323,"about_ca_topic_score_gemma":0.001869944,"domain_scores_codex":[0.9987367,0.000227321,0.0002253187,0.0003151614,0.0002685163,0.000226986],"domain_scores_gemma":[0.9993773,0.0000481295,0.00004790361,0.0003507263,0.0001048149,0.00007118093],"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":[0.0001037643,0.00009167365,0.1265603,0.00003289563,0.0001830718,0.000004721689,0.0001378327,0.0001210838,0.8695389,0.0004672017,0.002264045,0.0004945101],"study_design_scores_gemma":[0.0004316807,0.00006767524,0.9586321,0.0000243431,0.0001080818,0.000002092396,0.0002398652,0.0005574964,0.01625009,0.0003276965,0.02323654,0.0001223742],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9953718,0.001541081,0.0002907461,0.0002484411,0.00003556377,0.0002386255,0.0001775714,0.000003249226,0.002092882],"genre_scores_gemma":[0.9979146,0.0005788567,0.00006862853,0.0001496324,0.00007928101,0.00001127618,0.0006139884,0.000006998775,0.0005767155],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.8532888,"threshold_uncertainty_score":0.3662462,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.04192555270471198,"score_gpt":0.3092222922568069,"score_spread":0.2672967395520949,"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."}}