{"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":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0004163676,0.0001852955,0.0003942013,0.0000645062,0.0001122903,0.00005313658,0.00008059249,0.0001191795,0.000003015481],"category_scores_gemma":[0.0001432043,0.0001424933,0.0001090579,0.0003430142,0.0001343693,0.00000730865,0.00005725687,0.0001051375,3.773544e-7],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000003809645,"about_ca_system_score_gemma":0.00004971034,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002247321,"about_ca_topic_score_gemma":0.00001319261,"domain_scores_codex":[0.9988366,0.0001089833,0.0003605057,0.0003535302,0.0001256147,0.0002148185],"domain_scores_gemma":[0.9993052,0.000008680429,0.0001229052,0.0003384505,0.0001432949,0.00008148921],"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":[0.00000465146,0.00001384122,0.0008673937,0.0001100949,0.0003537536,4.383e-7,0.0001274871,0.02762258,0.9699196,0.00006889994,0.00004034641,0.0008709783],"study_design_scores_gemma":[0.0007079326,0.00003007428,0.0007837336,0.00004730912,0.001063049,0.00006338598,0.0005380114,0.2463345,0.7428155,0.00001788534,0.007252133,0.0003464687],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9768547,0.01774636,0.004924186,0.000180992,0.00006547837,0.0001036324,0.00008018585,0.00001487673,0.00002956205],"genre_scores_gemma":[0.9977449,0.0003381121,0.001447041,0.0001378197,0.0001465349,0.00001495048,0.00008149642,0.0000176869,0.00007144316],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.227104,"threshold_uncertainty_score":0.5810708,"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."}}