{"id":"W4386629994","doi":"10.1016/j.mimet.2023.106822","title":"A replica plating method for efficient, high-throughput screening of antibiotic gene clusters in bacteria uncovers a holomycin-like cluster in the clinical isolate, Pantoea agglomerans 20KB447973","year":2023,"lang":"en","type":"article","venue":"Journal of Microbiological Methods","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":5,"is_retracted":false,"has_abstract":false,"ca_institutions":"University of Regina","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research; University of Regina","keywords":"Pantoea agglomerans; Pantoea; Biology; Microbiology; Mutant; Gene cluster; Escherichia coli; Horizontal gene transfer; Antibiotics; Gene; Bacteria; Transposable element; Computational biology; Genetics; Genome; 16S ribosomal RNA","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":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0008498993,0.0009598451,0.001012598,0.001569881,0.0005463335,0.0007070124,0.00130484,0.0007402689,0.002005694],"category_scores_gemma":[0.001180335,0.0005896633,0.0007289096,0.001178188,0.0003729069,0.0003503107,0.0006468657,0.001074819,0.002486955],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002125314,"about_ca_system_score_gemma":0.0003468762,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001112295,"about_ca_topic_score_gemma":0.00196989,"domain_scores_codex":[0.9984426,0.0003228376,0.0001405592,0.0003393874,0.0006406094,0.0001139969],"domain_scores_gemma":[0.9988085,0.0004654779,0.0001170711,0.0002975462,0.0002131419,0.00009831187],"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":[0.00004370271,0.00005742055,0.0003856525,0.00003999814,0.00001117744,0.00004058468,0.00002840686,0.0000327719,0.9951196,0.00002542371,0.0001285081,0.004086816],"study_design_scores_gemma":[0.00002298406,0.0005583805,0.008577828,0.00001922838,0.00008786633,0.0007103299,0.0001070291,0.001694518,0.9858007,0.00006491505,0.00232757,0.00002849407],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.6999245,0.003192768,0.2783969,0.0006993283,0.0003724071,0.002008672,0.007154503,0.002964276,0.005286586],"genre_scores_gemma":[0.6583523,0.003362463,0.3106416,0.0002521302,0.0001082205,0.001738376,0.01395064,0.0007839616,0.01081039],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002005694,"threshold_uncertainty_score":0.006709695,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.06125566878818447,"score_gpt":0.4015018209403947,"score_spread":0.3402461521522102,"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."}}