{"id":"W4307379589","doi":"10.1186/s12915-022-01433-w","title":"The pangenome of the wheat pathogen Pyrenophora tritici-repentis reveals novel transposons associated with necrotrophic effectors ToxA and ToxB","year":2022,"lang":"en","type":"article","venue":"BMC Biology","topic":"Wheat and Barley Genetics and Pathology","field":"Agricultural and Biological Sciences","cited_by":67,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Manitoba; University of Alberta; Agriculture and Agri-Food Canada","funders":"Saskatchewan Wheat Development Commission; Alberta Wheat Commission; Agriculture and Agri-Food Canada; University of Carthage","keywords":"Biology; Effector; Genome; Genetics; Transposable element; Gene; Horizontal gene transfer; Comparative genomics; Genome evolution; Pyrenophora; Genomics; Cell biology","routes":{"ca_aff":true,"ca_fund":true,"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":[0.0001044851,0.0003141204,0.0002252906,0.0005938859,0.0001999076,0.0003277027,0.0001400659,0.0002884277,0.0007007929],"category_scores_gemma":[0.0001859398,0.0001355369,0.0003205023,0.0006285231,0.0001557161,0.0002830782,0.0003196184,0.0003067463,0.0001941969],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0001869529,"about_ca_system_score_gemma":0.0001847315,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0008712698,"about_ca_topic_score_gemma":0.001358348,"domain_scores_codex":[0.999896,0.000005769295,0.000007434972,0.00005198633,0.00002105697,0.00001764416],"domain_scores_gemma":[0.999835,0.00002914434,0.00006306059,0.00001617545,0.00002478558,0.00003181955],"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":[0.0001856907,0.00002578373,0.008119646,0.0001372468,0.00002602552,0.0001531558,0.0001657878,0.0001028028,0.9853359,0.00004763422,0.00005825752,0.005641894],"study_design_scores_gemma":[0.00003350887,0.0008681495,0.8011904,0.00004946998,0.0002976729,0.003707651,0.0006815505,0.002071225,0.1825099,0.0002658094,0.008297306,0.00002740572],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.993836,0.0006773788,0.00171132,0.00003762191,0.000005796431,0.00002619756,0.003071421,0.00005466579,0.000579625],"genre_scores_gemma":[0.9830986,0.0005606413,0.003182326,0.00006083339,0.00001002004,0.0000311496,0.01209785,0.00003182028,0.0009268685],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0008712698,"threshold_uncertainty_score":0.002344429,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.0182810822913678,"score_gpt":0.1995397272330815,"score_spread":0.1812586449417137,"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."}}