{"id":"W2921108547","doi":"10.1038/s41559-019-0834-1","title":"Megaphylogeny resolves global patterns of mushroom evolution","year":2019,"lang":"en","type":"article","venue":"Nature Ecology & Evolution","topic":"Mycorrhizal Fungi and Plant Interactions","field":"Agricultural and Biological Sciences","cited_by":300,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Northern Research Station; Department of Microbiology, Faculty of Science, Chulalongkorn University; Russian Academy of Sciences; Sorbonne Université; Instytut Botaniki im. W. Szafera Polskiej Akademii Nauk; Tartu Ülikool; Suomen Ympäristökeskus; Mendelova Univerzita v Brně; Joint Genome Institute; Szent István Egyetem; U.S. Forest Service; Muséum National d'Histoire Naturelle; Centre National de la Recherche Scientifique; Department of Biology, San Francisco State University; Universitetet i Oslo; Naturalis Biodiversity Center; Helsingin Yliopisto; Magyar Tudományos Akadémia; Institut National de la Recherche Agronomique; University of Toronto; Universidad de Buenos Aires; Eötvös Loránd Tudományegyetem; U.S. Department of Energy; Universiteit Utrecht; Szegedi Tudományegyetem; San Francisco State University; Consejo Nacional de Investigaciones Científicas y Técnicas","keywords":"Agaricomycetes; Biology; Mushroom; Adaptive radiation; Clade; Phylogenetics; Lineage (genetic); Ecology; Ecological niche; Decomposer; Evolutionary biology; Botany; Ecosystem; Basidiomycota","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":["insufficient_payload"],"consensus_categories":[],"category_scores_codex":[0.0001563968,0.0001318271,0.0001976231,0.00002341907,0.0001020035,0.000009821621,0.0002011914,0.0005608603,0.002712485],"category_scores_gemma":[0.000127518,0.00006100056,0.0001314515,0.0002922954,0.000009763974,0.000132966,0.00005239875,0.0003471303,0.0005125793],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001763629,"about_ca_system_score_gemma":0.0000195399,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0006383451,"about_ca_topic_score_gemma":0.002366182,"domain_scores_codex":[0.9989259,0.000114288,0.0002315879,0.0002952694,0.0001624368,0.0002704719],"domain_scores_gemma":[0.999126,0.000456095,0.0001527915,0.00008171533,0.0001263887,0.00005697739],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.00007245957,0.00007036363,0.8942919,0.000008064893,0.00002075519,0.000001086188,0.00000721581,0.00003890314,0.09035839,0.01118692,0.003357011,0.0005869012],"study_design_scores_gemma":[0.00007325241,0.0002554207,0.9872898,0.00002578918,0.00001863617,0.00002155304,0.0001027822,0.0002406825,0.0004530012,0.002474095,0.008921394,0.0001236332],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9923571,0.0008540077,0.00003281337,0.0004237103,0.001643979,0.0002558593,0.001251534,0.00005668287,0.003124272],"genre_scores_gemma":[0.9984302,0.000076645,0.00005229372,0.0001390215,0.0002663902,0.000009148397,0.0007610516,7.648356e-7,0.0002644874],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.09299783,"threshold_uncertainty_score":0.9981992,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.003120601640026724,"score_gpt":0.2000661914809485,"score_spread":0.1969455898409218,"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."}}