{"id":"W2921345832","doi":"10.1101/572628","title":"COI metabarcoding primer choice affects richness and recovery of indicator taxa in freshwater systems","year":2019,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Environmental DNA in Biodiversity Studies","field":"Environmental Science","cited_by":10,"is_retracted":false,"has_abstract":true,"ca_institutions":"Natural Resources Canada; Canadian Forest Service; University of Guelph","funders":"Government of Canada; Ontario Genomics; Genome Canada","keywords":"Species richness; Biology; Taxon; Environmental DNA; Ecology; Biodiversity; Amplicon; Cytochrome c oxidase subunit I; DNA barcoding; Phylogenetic tree; Metagenomics; Zoology; Polymerase chain reaction; Genetics","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":[0.004579415,0.0005250205,0.0005214747,0.0008850241,0.0006716519,0.001545775,0.0005440427,0.0008003116,0.000921057],"category_scores_gemma":[0.00688044,0.0005532251,0.0004034966,0.0007421463,0.0006588852,0.0005945899,0.0007439882,0.0006567989,0.0005595168],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0004698755,"about_ca_system_score_gemma":0.0005130823,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002254677,"about_ca_topic_score_gemma":0.007942648,"domain_scores_codex":[0.9948083,0.00194695,0.0003955354,0.001637899,0.0008366078,0.0003748195],"domain_scores_gemma":[0.9957228,0.001906698,0.001196931,0.0002986819,0.0007268924,0.0001479361],"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":[0.0004293649,0.0001390803,0.1059201,0.0003535381,0.0001855911,0.0000899212,0.0005225427,0.001298066,0.8673506,0.0002265315,0.0005404307,0.02294415],"study_design_scores_gemma":[0.00002865105,0.0008944458,0.2576821,0.0002211109,0.0003948311,0.0005885323,0.0006768063,0.01581225,0.7163648,0.0004554633,0.006770559,0.0001104625],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9768702,0.001164246,0.0192734,0.0001811667,0.00003271293,0.00007576924,0.0007173685,0.0002823647,0.001402756],"genre_scores_gemma":[0.9460875,0.0004179775,0.04977186,0.0004903293,0.00001040928,0.0001533852,0.00145344,0.0001680189,0.001447066],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.004579415,"threshold_uncertainty_score":0.0242185,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01170677366531938,"score_gpt":0.1960345654009645,"score_spread":0.1843277917356451,"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."}}