{"id":"W3173519049","doi":"10.3389/fmicb.2021.683109","title":"Roseobacters in a Sea of Poly- and Paraphyly: Whole Genome-Based Taxonomy of the Family Rhodobacteraceae and the Proposal for the Split of the “Roseobacter Clade” Into a Novel Family, Roseobacteraceae fam. nov.","year":2021,"lang":"en","type":"article","venue":"Frontiers in Microbiology","topic":"Microbial Community Ecology and Physiology","field":"Environmental Science","cited_by":149,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Faculty of Graduate Studies and Research, University of Alberta; University of Alberta; Alberta Innovates; Alberta Innovates - Technology Futures; Natural Sciences and Engineering Research Council of Canada; Canadian Institute for Advanced Research","keywords":"Biology; Paraphyly; Roseobacter; Clade; Phylogenetic tree; Taxonomy (biology); Evolutionary biology; Genome; Phylogenetics; Whole genome sequencing; Phylogenetic nomenclature; Genetics; Zoology; Gene","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":["sts"],"consensus_categories":[],"category_scores_codex":[0.000758447,0.0002667476,0.0006582537,0.00006612179,0.0002312623,0.00001462197,0.0009249135,0.0002776721,0.00003208756],"category_scores_gemma":[0.0001092297,0.0001432409,0.0001991584,0.0004474524,0.003894355,0.00008119828,0.0008292801,0.0005652728,9.770094e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00009146497,"about_ca_system_score_gemma":0.0001753541,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001063102,"about_ca_topic_score_gemma":0.004525856,"domain_scores_codex":[0.9974959,0.001000599,0.0006455119,0.0003954108,0.00005762004,0.0004048905],"domain_scores_gemma":[0.9979868,0.0007165523,0.000456179,0.000768888,0.00003994223,0.00003165206],"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":[0.0006179529,0.0001659564,0.2246741,0.000055191,0.00007344145,3.530039e-7,0.001722778,0.0001745516,0.7709737,0.0001186064,0.0006105722,0.0008127564],"study_design_scores_gemma":[0.0040651,0.0001386617,0.9539027,0.00007057625,0.00007929686,0.00001534774,0.001855716,0.0002701249,0.0150019,0.0008468212,0.02351024,0.0002435474],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9934675,0.001710879,0.0005575599,0.001934154,0.0004799152,0.001410263,0.0003836701,0.000003945924,0.00005216965],"genre_scores_gemma":[0.9940202,0.0001222003,0.004339955,0.001252029,0.0000167602,0.0001009291,0.00006129374,0.00001725555,0.00006935612],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7559718,"threshold_uncertainty_score":0.9988165,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009555030721384502,"score_gpt":0.2008127824738704,"score_spread":0.1912577517524859,"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."}}