{"id":"W4389301887","doi":"10.21203/rs.3.rs-3685545/v1","title":"Short-read full-length 16S rRNA amplicon sequencing for characterisation of the respiratory bacteriome of captive and free-ranging African elephants (Loxodonta africana).","year":2023,"lang":"en","type":"preprint","venue":"Research Square","topic":"Gut microbiota and health","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Kruger (Canada)","funders":"Medical Research Council; Universiteit Stellenbosch; South African Medical Research Council; National Research Foundation; American Association of Zoo Veterinarians","keywords":"Biology; Amplicon; Amplicon sequencing; 16S ribosomal RNA; African elephant; Hypervariable region; Computational biology; Pyrosequencing; Genetics; Deep sequencing; Metagenomics; Evolutionary biology; DNA sequencing; Gene; Ecology; Polymerase chain reaction; Genome","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0003515257,0.0003211994,0.0001512472,0.0004989528,0.0002592549,0.0002957518,0.0001780274,0.0004089439,0.0007572536],"category_scores_gemma":[0.0003812403,0.00012101,0.0001939544,0.00023213,0.0002688443,0.0002320089,0.0002392172,0.0001762557,0.0002682712],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00008937456,"about_ca_system_score_gemma":0.0001003126,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0005067209,"about_ca_topic_score_gemma":0.001337375,"domain_scores_codex":[0.9998308,0.00003125979,0.000008794587,0.00006084102,0.00004954564,0.00001860137],"domain_scores_gemma":[0.999877,0.00002764586,0.00003875245,0.00001319973,0.00002526204,0.0000181967],"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":[0.00007474903,0.00001654329,0.006200732,0.00003601854,0.0000102215,0.00008433011,0.0001117541,0.00004210721,0.990948,0.0000171678,0.00001560207,0.002442578],"study_design_scores_gemma":[0.00001690604,0.001596842,0.6786289,0.00006848089,0.0001111894,0.001651506,0.0008236192,0.001946816,0.310378,0.0001501623,0.004606042,0.000021555],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9956267,0.0003835699,0.003065738,0.00002009015,0.00001052819,0.00003793285,0.0004505247,0.00002063994,0.0003842284],"genre_scores_gemma":[0.9803753,0.000402172,0.01541609,0.00008972985,0.00001817549,0.0001251303,0.001832173,0.00002871934,0.001712549],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0007572536,"threshold_uncertainty_score":0.002533257,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.1280172854493484,"score_gpt":0.3877429455613771,"score_spread":0.2597256601120286,"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."}}