{"id":"W3203609945","doi":"10.1101/2021.10.07.463549","title":"Evolutionary sweeps of subviral parasites and their phage host bring unique parasite variants and disappearance of a phage CRISPR-Cas system","year":2021,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Vibrio bacteria research studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":8,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"International Centre for Diarrhoeal Disease Research, Bangladesh; National Institute of Allergy and Infectious Diseases; Global Affairs Canada; Department for International Development; National Institutes of Health; Department for International Development, UK Government; Styrelsen för Internationellt Utvecklingssamarbete; Burroughs Wellcome Fund","keywords":"Vibrio cholerae; CRISPR; Biology; Bacteriophage; Host (biology); Lineage (genetic); Population; Evolutionary biology; Genome; Pandemic; Virology; Genetics; Coronavirus disease 2019 (COVID-19); Gene; Bacteria; Infectious disease (medical specialty); Demography; Sociology; Medicine","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":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0004495811,0.0004828255,0.0007668816,0.0001274072,0.0001162859,0.00009157303,0.0003184555,0.0003885782,0.000002990513],"category_scores_gemma":[0.000212825,0.0004809092,0.0001317034,0.0002107586,0.0004098303,0.00002381192,0.001181693,0.0003195787,8.06906e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00006327513,"about_ca_system_score_gemma":0.0003135968,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000129724,"about_ca_topic_score_gemma":0.000009810361,"domain_scores_codex":[0.9975904,0.0002810993,0.000535934,0.0009292833,0.00022416,0.0004391553],"domain_scores_gemma":[0.9980174,0.00004210322,0.0004193322,0.0008806289,0.0004703167,0.0001701809],"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":[0.00008468459,0.0000829883,0.05801453,0.002296142,0.0004250481,0.0000373493,0.0000360238,0.000008170949,0.9389197,0.00007834896,0.00001467729,0.000002345575],"study_design_scores_gemma":[0.0003818852,0.00008052912,0.4212996,0.0007482755,0.00004818312,2.319527e-7,0.00003362927,0.000130197,0.5769386,3.053925e-7,0.00005286177,0.0002857382],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9778925,0.01903384,0.001642936,0.00003305709,0.0001648195,0.0005375289,0.0006512891,0.0000366167,0.000007479104],"genre_scores_gemma":[0.9954395,0.002771497,0.001474301,0.00001459972,0.0001520943,0.00007149623,0.000003722547,0.00006905027,0.000003782503],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.363285,"threshold_uncertainty_score":0.9997643,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00893477957352134,"score_gpt":0.2314356827444668,"score_spread":0.2225009031709454,"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."}}