{"id":"W4393900816","doi":"10.1371/journal.pone.0301110","title":"Intestinal microbiome profiles in broiler chickens raised without antibiotics exhibit altered microbiome dynamics relative to conventionally raised chickens","year":2024,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"Hospital for Sick Children; University of Toronto; University of Guelph","funders":"Ontario Agri-Food Innovation Alliance; Ontario Ministry of Agriculture, Food and Rural Affairs","keywords":"Microbiome; Biology; Firmicutes; Bacteroidetes; Ruminococcus; Broiler; Metagenomics; Bacteroides; Clostridium; Lachnospiraceae; Microbiology; Clostridium perfringens; 16S ribosomal RNA; Genetics; Animal science; Bacteria; Gene","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":[0.000136668,0.0002548071,0.0002759245,0.0004277052,0.0002109142,0.0004065392,0.0001169373,0.0003062869,0.0003896259],"category_scores_gemma":[0.000263271,0.0002386477,0.0001767467,0.0001231512,0.0002978023,0.0002352861,0.0002025448,0.0003764372,0.0001101233],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002712267,"about_ca_system_score_gemma":0.0001733901,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002907013,"about_ca_topic_score_gemma":0.006807841,"domain_scores_codex":[0.9998312,0.00001820668,0.00001417604,0.00007220644,0.00002994982,0.00003422439],"domain_scores_gemma":[0.9997355,0.00002922733,0.00009925694,0.00001477974,0.00004402774,0.00007721777],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0006841819,0.00006284368,0.03117291,0.00004774417,0.00002694946,0.0001345243,0.0001921446,0.00003576835,0.9660284,0.000009715081,0.00002802036,0.001576823],"study_design_scores_gemma":[0.0000081301,0.0008884359,0.972052,0.00001244909,0.00003885362,0.0002759306,0.0004210155,0.0001433001,0.02581114,0.00001156093,0.0003276087,0.00000955224],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9995883,0.0001240896,0.00006903518,0.00000777154,0.00000221503,0.00000402058,0.00009467133,0.000002320424,0.0001075366],"genre_scores_gemma":[0.9984813,0.0001500019,0.0003835929,0.0000422869,0.000002969907,0.00001113976,0.0003482334,0.000004849514,0.0005756005],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002907013,"threshold_uncertainty_score":0.00578022,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02484478893207429,"score_gpt":0.2618082282953098,"score_spread":0.2369634393632355,"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."}}