{"id":"W4408567517","doi":"10.1073/pnas.2424463122","title":"Diversification, niche adaptation, and evolution of a candidate phylum thriving in the deep Critical Zone","year":2025,"lang":"en","type":"article","venue":"Proceedings of the National Academy of Sciences","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":18,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"College of Engineering, Michigan State University; National Natural Science Foundation of China; London Health Sciences Foundation; Iowa State University; Overseas Expertise Introduction Center for Discipline Innovation of Food Nutrition and Human Health (111 Center); Michigan State University","keywords":"Biology; Ecology; Phylum; Ecological niche; Macroevolution; Adaptation (eye); Microbial ecology; Niche; Evolutionary ecology; Evolutionary biology; Phylogenetics; Paleontology; Gene; Habitat","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":[0.0002142233,0.0003138309,0.000294696,0.00101876,0.0004204255,0.0005468378,0.000247223,0.000366212,0.0008304802],"category_scores_gemma":[0.0003493091,0.0001467346,0.0002286089,0.000914493,0.0002924042,0.0002897467,0.0007513766,0.0003532585,0.0002463925],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002364603,"about_ca_system_score_gemma":0.000308936,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00206613,"about_ca_topic_score_gemma":0.002429819,"domain_scores_codex":[0.9998677,0.00001155438,0.00000515289,0.00004310641,0.00002218738,0.00005032288],"domain_scores_gemma":[0.9997181,0.00003504704,0.00007944265,0.00001788843,0.00005409712,0.00009534327],"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":[0.0004173622,0.00006469274,0.3427239,0.0001255488,0.0000607739,0.0002698911,0.0006579136,0.000397742,0.6359226,0.0003701357,0.0001608202,0.01882863],"study_design_scores_gemma":[0.000005224888,0.0001071759,0.9897436,0.00002001182,0.00002378084,0.0004823882,0.0007197869,0.00092847,0.006583673,0.0001912042,0.001182235,0.00001233725],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9988862,0.0002354353,0.0003618432,0.00002826018,0.000001879913,0.000003244196,0.0002262114,0.000007505654,0.000249515],"genre_scores_gemma":[0.998259,0.0001896958,0.0007089569,0.00003401078,0.000003230105,0.000005310757,0.0005725367,0.000006398047,0.0002208927],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.00206613,"threshold_uncertainty_score":0.004108191,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0232685394425031,"score_gpt":0.2855074049329784,"score_spread":0.2622388654904753,"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."}}