{"id":"W2804233573","doi":"10.1126/science.aat1743","title":"Phylogenomics reveals multiple losses of nitrogen-fixing root nodule symbiosis","year":2018,"lang":"en","type":"article","venue":"Science","topic":"Legume Nitrogen Fixing Symbiosis","field":"Agricultural and Biological Sciences","cited_by":462,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Universidad Nacional de Quilmes; Consejo Nacional de Investigaciones Científicas y Técnicas; Deutsche Forschungsgemeinschaft; U.S. Department of Agriculture; Agence Nationale de la Recherche; European Research Council; National Science Foundation","keywords":"Symbiosis; Phylogenomics; Biology; Genome; Nitrogen fixation; Root nodule; Evolutionary biology; Endosymbiosis; Phylogenetics; Bacteria; Genetics; Gene; Clade","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":[0.0007863598,0.000161842,0.0002183976,0.00004253844,0.0005325016,0.00008787668,0.0010162,0.00007187973,0.0002190474],"category_scores_gemma":[0.0004773342,0.00007085212,0.000104788,0.001460233,0.001253463,0.0003063094,0.0002760752,0.00008369279,0.0001533054],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006253825,"about_ca_system_score_gemma":0.00004055233,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002199252,"about_ca_topic_score_gemma":0.0003020426,"domain_scores_codex":[0.9980811,0.00004595121,0.0003154302,0.0005328948,0.0004743215,0.0005502595],"domain_scores_gemma":[0.9989044,0.0001894908,0.00019198,0.0001781309,0.0003742913,0.0001617016],"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":[0.000004907382,0.0000375357,0.2909729,0.000003130427,0.000004081357,4.046614e-7,0.00007493,6.694926e-8,0.7067078,0.00009806253,0.00005438028,0.002041698],"study_design_scores_gemma":[0.00007523864,0.0001647973,0.2220916,0.00002147154,0.000008462679,0.000006188896,0.00009632437,0.00003976496,0.7758397,0.001280024,0.0002134827,0.000162928],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9981889,0.0000946384,0.000003103087,0.0002187964,0.0002554926,0.0001633857,0.0000466211,0.0000670255,0.0009620932],"genre_scores_gemma":[0.9984028,0.000003459005,0.001069627,0.0001620907,0.000288381,0.000006843603,0.00000397723,0.000001593037,0.00006124428],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.06913187,"threshold_uncertainty_score":0.4618437,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01647610945089566,"score_gpt":0.2285148737965249,"score_spread":0.2120387643456292,"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."}}