{"id":"W4385850827","doi":"10.1128/spectrum.01716-23","title":"Investigating <i>in vivo Mycobacterium avium</i> subsp. <i>paratuberculosis</i> microevolution and mixed strain infections","year":2023,"lang":"en","type":"article","venue":"Microbiology Spectrum","topic":"Mycobacterium research and diagnosis","field":"Medicine","cited_by":6,"is_retracted":false,"has_abstract":true,"ca_institutions":"Agriculture and Agri-Food Canada; Memorial University of Newfoundland","funders":"Agriculture and Agri-Food Canada; Natural Sciences and Engineering Research Council of Canada; Alliance de recherche numérique du Canada; Government of Canada; Memorial University of Newfoundland; Atlantic Canada Opportunities Agency; Compute Canada; Dairy Farmers of Canada","keywords":"Microevolution; Biology; Paratuberculosis; Genetics; Mycobacterium; Strain (injury); Gene; Host adaptation; Microbiology; Pathogen; Host (biology); Genome; Bacteria; Population","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":[0.0004204513,0.0003552645,0.000299939,0.0002449361,0.0002553485,0.0003620331,0.0002007534,0.0006227745,0.000837639],"category_scores_gemma":[0.0003782387,0.0002192336,0.0003050385,0.0001481071,0.0003794124,0.000296948,0.0002780837,0.0008250484,0.0003185676],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002242769,"about_ca_system_score_gemma":0.0001232002,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008100221,"about_ca_topic_score_gemma":0.001157001,"domain_scores_codex":[0.9995452,0.00008600205,0.00002395298,0.0001493021,0.00006087175,0.0001347193],"domain_scores_gemma":[0.9994612,0.0001260889,0.0001348814,0.00004221069,0.000101714,0.0001338057],"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":[0.0003459789,0.0002006633,0.009627396,0.00005011728,0.00002213737,0.0001534238,0.0001162799,0.00004460874,0.9884037,0.00002783176,0.00004138935,0.000966492],"study_design_scores_gemma":[0.00005661897,0.00738998,0.3866146,0.0000368395,0.0001773075,0.002472733,0.0008650311,0.001977621,0.5961127,0.0001551562,0.004115023,0.00002649081],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9972804,0.0002628165,0.001327332,0.00004150176,0.00001440304,0.00004802237,0.0002522033,0.00002041691,0.0007530533],"genre_scores_gemma":[0.9968713,0.0001239998,0.001433088,0.0001374039,0.00001172816,0.00004656156,0.0006376568,0.00002258637,0.0007156522],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.000837639,"threshold_uncertainty_score":0.002802253,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01480373134905676,"score_gpt":0.2635357819554205,"score_spread":0.2487320506063637,"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."}}