{"id":"W4386324363","doi":"10.3390/jof9090894","title":"Compensatory Base Changes in ITS2 Secondary Structure Alignment, Modelling, and Molecular Phylogeny: An Integrated Approach to Improve Species Delimitation in Tulasnella (Basidiomycota)","year":2023,"lang":"en","type":"article","venue":"Journal of Fungi","topic":"Mycorrhizal Fungi and Plant Interactions","field":"Agricultural and Biological Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"Memorial University of Newfoundland","funders":"Universidad Técnica Particular de Loja","keywords":"Biology; Monophyly; Internal transcribed spacer; Phylogenetic tree; Clade; Basidiomycota; Evolutionary biology; Phylogenetics; Botany; Genetics; 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":[0.0002946964,0.0001289202,0.0002127281,0.0001418233,0.00004376945,0.00005497699,0.0001345875,0.00008297433,0.0002220758],"category_scores_gemma":[0.00004993945,0.00006050948,0.00004350167,0.0004747268,0.00000612234,0.0001475973,0.00002823619,0.0002536131,0.000008461448],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0000412861,"about_ca_system_score_gemma":0.00001938162,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001706035,"about_ca_topic_score_gemma":0.0008621341,"domain_scores_codex":[0.9990537,0.0001155447,0.0002834252,0.0001801826,0.0001726664,0.0001944356],"domain_scores_gemma":[0.999328,0.0003042539,0.0001250431,0.00003882117,0.00008052078,0.0001234174],"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":[0.000128944,0.00007017032,0.004647339,0.00001716292,0.00001549348,0.00009375415,0.0004884404,0.006648431,0.9770503,0.0002001027,0.001226358,0.009413504],"study_design_scores_gemma":[0.002484412,0.007093711,0.2870279,0.001501686,0.0002075307,0.001782608,0.04186077,0.2676307,0.2744283,0.01010506,0.1028995,0.002977791],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9979873,0.0004709297,0.0001135055,0.0002626609,0.0002143445,0.0001606847,0.0004164542,0.00001095317,0.0003631649],"genre_scores_gemma":[0.9978011,0.0006020614,0.0008291383,0.000270708,0.0001331613,0.000003571188,0.0002838711,0.00000195194,0.00007449675],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.702622,"threshold_uncertainty_score":0.2467505,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02329059557798883,"score_gpt":0.2197588272930258,"score_spread":0.196468231715037,"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."}}