{"id":"W2089322402","doi":"10.1128/aem.00667-09","title":"In Situ Phylogenetic Structure and Diversity of Wild <i>Bradyrhizobium</i> Communities","year":2009,"lang":"en","type":"article","venue":"Applied and Environmental Microbiology","topic":"Legume Nitrogen Fixing Symbiosis","field":"Agricultural and Biological Sciences","cited_by":85,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"National Institute of General Medical Sciences; Natural Sciences and Engineering Research Council of Canada; National Institutes of Health; National Science Foundation","keywords":"Bradyrhizobium; Biology; Lotus; Phylogenetic tree; Bacteria; Phylogenetic diversity; Host (biology); Botany; Symbiotic bacteria; Population; Root nodule; Symbiosis; Phylogenetics; Bradyrhizobium japonicum; Ecology; Rhizobiaceae; Genetics; Gene","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":[0.00003497313,0.0001020085,0.0001558177,0.000009694008,0.0001019992,0.000004318388,0.0001031795,0.0000995569,0.00006151121],"category_scores_gemma":[4.604181e-7,0.00004979145,0.00001671259,0.00003705732,0.0002227643,0.00002472663,0.0002013231,0.00008603014,0.000001711944],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001128159,"about_ca_system_score_gemma":5.905648e-7,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0001187965,"about_ca_topic_score_gemma":0.0001593166,"domain_scores_codex":[0.9995642,0.00002953545,0.0001019769,0.0001383554,0.00002145883,0.0001444692],"domain_scores_gemma":[0.9998524,0.00004110096,0.00004022121,0.00003671836,8.68412e-7,0.0000286647],"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":[0.00001485141,0.00003648684,0.04345213,0.000001978512,0.000005024516,5.978018e-7,0.0002635657,7.612399e-8,0.9537775,0.00006260793,0.0000206544,0.002364521],"study_design_scores_gemma":[0.000302973,0.0001953901,0.5784404,0.000004201148,0.00001118711,0.0000289637,0.0007649226,3.403595e-7,0.4188243,0.001081411,0.0001990243,0.0001469865],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9991658,0.0003233143,5.177421e-8,0.0001869337,0.00001288585,0.00009118702,0.0001039739,0.000005925515,0.0001099428],"genre_scores_gemma":[0.9990624,0.00006852237,0.00004532034,0.0007031417,0.00001534551,8.379438e-7,0.00009663298,4.866915e-7,0.000007274273],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.5349882,"threshold_uncertainty_score":0.2030436,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.005155528704243703,"score_gpt":0.1549320489519393,"score_spread":0.1497765202476956,"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."}}