{"id":"W4416300078","doi":"10.1101/2025.11.13.688287","title":"Conjugation-mediated DNA delivery to the filamentous fungus <i>Ustilago maydis</i>","year":2025,"lang":"","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Animal Genetics and Reproduction","field":"Biochemistry, Genetics and Molecular Biology","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"Western University","funders":"Natural Sciences and Engineering Research Council of Canada","keywords":"Extrachromosomal DNA; Horizontal gene transfer; DNA; Plasmid; Gene; Electroporation; Filamentous fungus; Genome","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0009668668,0.001113416,0.000736882,0.000251687,0.0006837633,0.0003738101,0.0013794,0.00123933,0.00009531021],"category_scores_gemma":[0.0005651864,0.001029179,0.0004232849,0.0009247354,0.0003153778,0.00001365734,0.001671879,0.0008508989,0.0002883006],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002386651,"about_ca_system_score_gemma":0.001595194,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00009082713,"about_ca_topic_score_gemma":0.00001741523,"domain_scores_codex":[0.9941822,0.0003314796,0.001117745,0.002678421,0.0006114419,0.001078745],"domain_scores_gemma":[0.9941927,0.00006541002,0.0006475288,0.003024054,0.001542564,0.000527726],"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":[0.0002660884,0.0002543812,0.0006581724,0.000273222,0.000536083,0.00001776037,0.00002085771,0.001326839,0.9869277,0.00008907891,0.009604853,0.00002496309],"study_design_scores_gemma":[0.0005682047,0.0003464402,0.01417289,0.0002760268,0.0003572014,7.061613e-8,0.00002020939,0.0003590512,0.619423,6.132414e-7,0.3633734,0.001102849],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9690541,0.01332416,0.004071287,0.002409496,0.006059723,0.003087121,0.00172621,0.0001516683,0.0001162516],"genre_scores_gemma":[0.9862605,0.006924353,0.001025324,0.002209314,0.002558663,0.0003966772,0.00001163984,0.0001402295,0.0004733519],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.3675047,"threshold_uncertainty_score":0.9992158,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.007616411233701245,"score_gpt":0.2073824904716848,"score_spread":0.1997660792379836,"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."}}