{"id":"W4405073788","doi":"10.1128/aem.01759-24","title":"Transcriptional delineation of polysaccharide utilization loci in the human gut commensal <i>Segatella copri</i> DSM18205 and co-culture with exemplar <i>Bacteroides</i> species on dietary plant glycans","year":2024,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Microbial Metabolites in Food Biotechnology","field":"Nursing","cited_by":12,"is_retracted":false,"has_abstract":true,"ca_institutions":"Canada's Michael Smith Genome Sciences Centre; University of British Columbia","funders":"Natural Sciences and Engineering Research Council of Canada; Canadian Institutes of Health Research","keywords":"Glycan; Bacteroides; Biology; Bacteroides thetaiotaomicron; Polysaccharide; Microbiome; Microbiology; Computational biology; Commensalism; Transcriptome; Gut microbiome; Genetics; Evolutionary biology; Bacteria; Gene; Biochemistry; Gene expression; Glycoprotein","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":[0.0002174756,0.0003444335,0.0005584291,0.0003576331,0.0002459975,0.000571718,0.0001860859,0.00031665,0.00113432],"category_scores_gemma":[0.0003270694,0.0002104109,0.0004576674,0.0004809441,0.0002573217,0.0001494754,0.0003966833,0.0004995834,0.0008556418],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00023806,"about_ca_system_score_gemma":0.0002666802,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002763125,"about_ca_topic_score_gemma":0.002686886,"domain_scores_codex":[0.9995968,0.0000363625,0.00002694727,0.0001588785,0.00009675948,0.00008432865],"domain_scores_gemma":[0.9998283,0.00003281005,0.00004299141,0.00002117992,0.00003972091,0.00003497014],"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":[0.00006960059,0.00001545929,0.001195583,0.00003721027,0.000004834953,0.00002575939,0.00005168273,0.0000280529,0.9975809,0.00001373904,0.00006627043,0.0009109633],"study_design_scores_gemma":[0.00003024052,0.0008117924,0.2013829,0.00004857015,0.0001162199,0.0008437925,0.001295955,0.003218571,0.7829565,0.0001133784,0.00912684,0.00005515778],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9897012,0.0009560961,0.002541199,0.000158375,0.00005024589,0.00005889227,0.004961789,0.0001282629,0.001444007],"genre_scores_gemma":[0.9782267,0.0005818351,0.006597018,0.0002394493,0.00003923045,0.0001294062,0.01137081,0.000104162,0.002711419],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002763125,"threshold_uncertainty_score":0.005494118,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01851434947864789,"score_gpt":0.2306715343906514,"score_spread":0.2121571849120035,"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."}}