{"id":"W3195024389","doi":"10.1128/msystems.00173-21","title":"Investigating the Chemolithoautotrophic and Formate Metabolism of Nitrospira moscoviensis by Constraint-Based Metabolic Modeling and <sup>13</sup> C-Tracer Analysis","year":2021,"lang":"en","type":"article","venue":"mSystems","topic":"Microbial Metabolic Engineering and Bioproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":19,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"Division of Graduate Education; Natural Sciences and Engineering Research Council of Canada; Great Lakes Bioenergy Research Center; Division of Chemical, Bioengineering, Environmental, and Transport Systems; Nederlandse Organisatie voor Wetenschappelijk Onderzoek; U.S. Department of Energy; Office of Science; National Science Foundation","keywords":"Nitrospira; Environmental chemistry; Nitrite; Nitrate; Nitrogen cycle; Wastewater; Sewage treatment; Nitrification; Aquatic ecosystem; Chemistry; Environmental science; Ecology; Biology; Environmental engineering; Nitrogen; Organic chemistry","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"metacan-v3-hybrid-931329e0061c","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001923008,0.0005468907,0.0003570927,0.0002022037,0.0002942569,0.0004231865,0.0004569826,0.0004204516,0.0006116049],"category_scores_gemma":[0.0003630896,0.0001668549,0.000426392,0.0003578028,0.0001815119,0.0003084036,0.0002917698,0.0003300961,0.0001321654],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0007710661,"about_ca_system_score_gemma":0.0008382282,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.02561421,"about_ca_topic_score_gemma":0.02567279,"domain_scores_codex":[0.9999501,0.000008908929,0.000003184068,0.00002060614,0.00001013332,0.000007136291],"domain_scores_gemma":[0.9999202,0.0000350777,0.00001406505,0.000008109604,0.00001303303,0.000009483566],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"simulation_or_modeling","study_design_gemma":"simulation_or_modeling","study_design_scores_codex":[0.0001778073,0.0001203094,0.0133878,0.0002139721,0.0001153813,0.0001544543,0.00006044093,0.7898442,0.1835596,0.002524061,0.0001478257,0.009694275],"study_design_scores_gemma":[0.00001463536,0.00008352872,0.005480668,0.000005465786,0.00002252008,0.00001925884,0.00004566193,0.9786626,0.01431386,0.0007113029,0.0006278237,0.00001272878],"study_design_candidate":"simulation_or_modeling","study_design_consensus":"simulation_or_modeling","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9899378,0.0002836464,0.00750992,0.00008231225,0.000004289996,0.00001324129,0.0007844546,0.0000505574,0.001333853],"genre_scores_gemma":[0.988142,0.0004447387,0.009992654,0.00001315797,0.000002204246,0.00003243648,0.001004073,0.00002710249,0.0003415917],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.02561421,"threshold_uncertainty_score":0.0509302,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007204922583055507,"score_gpt":0.2062569377529155,"score_spread":0.19905201516986,"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."}}