{"id":"W1987532371","doi":"10.1099/ijs.0.054213-0","title":"Conserved signature indels and signature proteins as novel tools for understanding microbial phylogeny and systematics: identification of molecular signatures that are specific for the phytopathogenic genera Dickeya, Pectobacterium and Brenneria","year":2014,"lang":"en","type":"article","venue":"INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY","topic":"Plant Pathogenic Bacteria Studies","field":"Agricultural and Biological Sciences","cited_by":61,"is_retracted":false,"has_abstract":true,"ca_institutions":"McMaster University","funders":"","keywords":"Biology; Pectobacterium; Phylogenetic tree; Phylogenetics; Indel; Genome; Conserved sequence; Molecular phylogenetics; Evolutionary biology; Subgenus; Genetics; Systematics; Bacterial genome size; Genus; Taxonomy (biology); Botany; Bacteria; Gene; Peptide sequence","routes":{"ca_aff":true,"ca_fund":false,"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":[0.0007682571,0.000390034,0.0005337025,0.001635009,0.0002695611,0.000575362,0.0004431467,0.0004832927,0.0008114165],"category_scores_gemma":[0.00107944,0.0002224469,0.0003545749,0.00134638,0.0004357101,0.001087307,0.0004563222,0.0007725224,0.0003678135],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002442044,"about_ca_system_score_gemma":0.0003793862,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0004207465,"about_ca_topic_score_gemma":0.0006771701,"domain_scores_codex":[0.9997318,0.00005308775,0.00002226558,0.0001000031,0.00006821805,0.00002454602],"domain_scores_gemma":[0.9992371,0.0002100893,0.0002808468,0.00007224189,0.00008427091,0.0001155605],"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":[0.0006316005,0.0001501781,0.05064209,0.001139172,0.0001557918,0.0005799705,0.0003483962,0.002319522,0.8296148,0.002448833,0.0003565191,0.1116132],"study_design_scores_gemma":[0.0001434145,0.00117025,0.4385371,0.0002798517,0.0005327513,0.005687539,0.0007102332,0.07122155,0.4442816,0.01007173,0.02712007,0.0002438492],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.883817,0.008984668,0.1025807,0.000336643,0.00006380565,0.00007405088,0.001908224,0.000580247,0.001654618],"genre_scores_gemma":[0.80616,0.002677559,0.1863641,0.0001502018,0.00005956711,0.00009573567,0.003211548,0.000103708,0.001177512],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001635009,"threshold_uncertainty_score":0.00406301,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.038895377075656,"score_gpt":0.222627350825353,"score_spread":0.183731973749697,"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."}}