{"id":"W2147547726","doi":"10.1128/jb.00359-10","title":"Complete Nucleotide Sequence of TOL Plasmid pDK1 Provides Evidence for Evolutionary History of IncP-7 Catabolic Plasmids","year":2010,"lang":"en","type":"article","venue":"Journal of Bacteriology","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":48,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Institute of Genetics; Japan Society for the Promotion of Science; Ministry of Education, Culture, Sports, Science and Technology","keywords":"Plasmid; Biology; Genetics; T-DNA Binary system; Transposable element; Gene; Horizontal gene transfer; Homologous recombination; Pseudomonas putida; Nucleic acid sequence; Molecular biology; Mutant; Genome; Recombinant DNA; Vector (molecular biology)","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0003629868,0.0001691958,0.0004828802,0.0001416266,0.00002750524,0.000003672343,0.0005115415,0.0004202416,0.00004232399],"category_scores_gemma":[0.0006153867,0.0001489447,0.0001979128,0.00005615333,0.0007024447,0.00001335548,0.0001526686,0.0002596482,0.000001199579],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00004613404,"about_ca_system_score_gemma":0.0006975714,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00003465243,"about_ca_topic_score_gemma":0.00004962815,"domain_scores_codex":[0.9985642,0.00007661774,0.0007879337,0.0002302761,0.0001029526,0.0002380648],"domain_scores_gemma":[0.9979815,0.0001035645,0.0009971736,0.0003358441,0.0005026613,0.00007925803],"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":[0.0008255558,0.00007520414,0.002489627,0.00008651274,0.00007723472,0.000002880067,0.00003554671,0.00001104287,0.9931775,0.0002719876,0.001742566,0.001204303],"study_design_scores_gemma":[0.001173333,0.003852178,0.02299501,0.0001115353,0.0000847156,0.0005638667,0.00003146674,0.0001022466,0.6632144,0.0003522753,0.3072436,0.0002753041],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9964951,0.001059012,0.000185983,0.0003808911,0.00148322,0.000190817,0.0001651668,0.000003917146,0.00003588055],"genre_scores_gemma":[0.9891559,0.0004967542,0.009696362,0.0001130741,0.0003882675,0.000008329273,0.00004065138,0.00001856896,0.00008202936],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3299631,"threshold_uncertainty_score":0.6073789,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03451057412465858,"score_gpt":0.2708642888577379,"score_spread":0.2363537147330794,"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."}}