{"id":"W2280701844","doi":"10.1038/ismej.2016.2","title":"Pathways and key intermediates required for obligate aerobic ammonia-dependent chemolithotrophy in bacteria and Thaumarchaeota","year":2016,"lang":"en","type":"article","venue":"The ISME Journal","topic":"Wastewater Treatment and Nitrogen Removal","field":"Environmental Science","cited_by":389,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Alberta","funders":"Natural Sciences and Engineering Research Council of Canada; Alberta Innovates; Austrian Science Fund; National Science Foundation","keywords":"Biology; Hydroxylamine; Thaumarchaeota; Nitrosomonas; Nitrification; Archaea; Nitrite; Ammonia; Bacteria; Nitrosomonas europaea; Biochemistry; Microbial metabolism; Catabolism; Nitrogen cycle; Glutamine synthetase; Obligate; Metabolism; Glutamine; Nitrogen; Botany; Ecology; Nitrate; Chemistry","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":[0.000122537,0.0003511541,0.0002947749,0.0002377239,0.0002569499,0.0004457227,0.0002403061,0.0003664176,0.000451855],"category_scores_gemma":[0.0002624384,0.0002112153,0.000259851,0.0001890336,0.0001789783,0.0004470948,0.0003795233,0.0002388829,0.0002094798],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002461225,"about_ca_system_score_gemma":0.0003379908,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.001189926,"about_ca_topic_score_gemma":0.001450714,"domain_scores_codex":[0.9998472,0.00001985109,0.00002053591,0.0000459299,0.00003079541,0.00003580154],"domain_scores_gemma":[0.9998291,0.00002881902,0.00005485678,0.00001881104,0.00003014257,0.00003831341],"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":[0.00007049907,0.00001264606,0.001262773,0.00005387616,0.000002588938,0.00005813764,0.00003737285,0.00006833037,0.9971534,0.0001133538,0.000007732842,0.001159212],"study_design_scores_gemma":[0.00001939668,0.0005761556,0.1699869,0.00003448042,0.00003298571,0.0009321249,0.0005900994,0.002954686,0.8215207,0.0009020526,0.002413115,0.00003722612],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9940745,0.001398643,0.002664229,0.00005164493,0.000008836906,0.00002888169,0.0004660437,0.00006752736,0.001239713],"genre_scores_gemma":[0.9954059,0.0003580149,0.002820913,0.00001912993,0.000003025984,0.00003509284,0.0008336004,0.00001032541,0.0005139034],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001189926,"threshold_uncertainty_score":0.002366066,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0146482235022796,"score_gpt":0.2101158781115232,"score_spread":0.1954676546092436,"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."}}