{"id":"W4411895356","doi":"10.1186/s40793-025-00734-1","title":"Rapid and sustained differentiation of disease-suppressive phyllosphere microbiomes in tomato following experimental microbiome selection","year":2025,"lang":"en","type":"article","venue":"Environmental Microbiome","topic":"Plant-Microbe Interactions and Immunity","field":"Agricultural and Biological Sciences","cited_by":3,"is_retracted":false,"has_abstract":true,"ca_institutions":"The Scarborough Hospital; University of Toronto","funders":"Huck Institutes of the Life Sciences; National Institute of Food and Agriculture; Ministry of Education- New Zealand; Fulbright New Zealand; Pennsylvania State University; University of Pennsylvania; Northeast SARE; U.S. Department of Agriculture","keywords":"Phyllosphere; Microbiome; Biology; Pseudomonas syringae; Metagenomics; Pseudomonas; Shotgun sequencing; Abundance (ecology); Relative species abundance; Dysbiosis; Microbiology; Genetics; Pathogen; Bacteria; Ecology; Gene; DNA sequencing","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":[0.0002793774,0.0002807094,0.0003035939,0.0002337419,0.0002611463,0.0005041038,0.000193887,0.000323283,0.001180825],"category_scores_gemma":[0.000356947,0.0001419302,0.0003057206,0.0001723852,0.000306307,0.0003475245,0.0004932722,0.0006429437,0.0003290799],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002526469,"about_ca_system_score_gemma":0.0002854817,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.000664201,"about_ca_topic_score_gemma":0.001088109,"domain_scores_codex":[0.9997464,0.000028609,0.00001616985,0.00009507783,0.00005966319,0.00005399608],"domain_scores_gemma":[0.9996532,0.00005310636,0.00007296062,0.00002806184,0.00006632499,0.0001262906],"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":[0.000100105,0.00002542873,0.001124409,0.00002488354,0.000005369559,0.00002283387,0.00004803111,0.00002330494,0.9979013,0.00001106532,0.00002847839,0.0006847936],"study_design_scores_gemma":[0.00003556269,0.002153088,0.2532541,0.00004844031,0.00006275922,0.0003633595,0.0006768975,0.002070756,0.7373908,0.0001898037,0.003700861,0.00005358097],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9955348,0.0003681492,0.001562413,0.00006461112,0.00001679792,0.00008016849,0.001547477,0.00005005953,0.0007754795],"genre_scores_gemma":[0.9899092,0.0003290674,0.0039849,0.0001795623,0.00001340173,0.0002610573,0.003602063,0.00006185105,0.00165883],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.001180825,"threshold_uncertainty_score":0.003950238,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.00430849873864734,"score_gpt":0.1935963267176433,"score_spread":0.1892878279789959,"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."}}