{"id":"W4409149121","doi":"10.1093/ismejo/wraf063","title":"Adaptive genomic plasticity in large-genome, broad-host–range vibrio phages","year":2025,"lang":"en","type":"article","venue":"The ISME Journal","topic":"Bacteriophages and microbial interactions","field":"Environmental Science","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université de Montréal","funders":"Institut de Recherche Clinique De Montréal; Canada Excellence Research Chairs, Government of Canada; H2020 European Research Council; Agence Nationale de la Recherche; Institut Français de Recherche pour l'Exploitation de la Mer; European Commission; Université Laval","keywords":"Biology; Host (biology); Genome; Evolutionary biology; Ecology; Vibrio; Generalist and specialist species; Genetics; Range (aeronautics); Gene; Bacteria","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":[0.0002177181,0.0001909943,0.0002322422,0.0008560806,0.0002433623,0.00053305,0.000158508,0.0002976277,0.0005407693],"category_scores_gemma":[0.0005626418,0.0001581307,0.0002445376,0.0005596238,0.0003892668,0.0002554332,0.0005000262,0.0002969749,0.0001229948],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001857902,"about_ca_system_score_gemma":0.0001802523,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0007478337,"about_ca_topic_score_gemma":0.001509481,"domain_scores_codex":[0.9997793,0.00002774264,0.00001481271,0.00009627416,0.00003489463,0.00004706535],"domain_scores_gemma":[0.999644,0.00009740363,0.000111581,0.00003532874,0.0000458048,0.00006590276],"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":[0.0001949915,0.00003350635,0.07564348,0.00005248575,0.00003464917,0.0001581215,0.0004467669,0.0002905569,0.9186535,0.000178643,0.00003035916,0.004282937],"study_design_scores_gemma":[0.000007825083,0.0001772371,0.9721147,0.00001199647,0.00002756027,0.0006452023,0.000751811,0.0007184841,0.02388301,0.000347645,0.00129623,0.00001835587],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9989393,0.0001551354,0.0004015451,0.000009588987,0.000002065138,0.000003294185,0.0001825086,0.000005848,0.0003007033],"genre_scores_gemma":[0.9987766,0.00007009746,0.0004786456,0.00002213435,0.000003068776,0.000006087841,0.0004350938,0.000005972387,0.000202343],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008560806,"threshold_uncertainty_score":0.001809061,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.008941888401614919,"score_gpt":0.2368355705032742,"score_spread":0.2278936821016593,"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."}}