{"id":"W4416119657","doi":"10.1094/mpmi-07-25-0095-r","title":"Single Amino Acid Change at Two Conserved Residues in Tomato Brown Rugose Fruit Virus Coat Protein Compromises Virion Assembly and Viral Systemic Infection","year":2025,"lang":"en","type":"article","venue":"Molecular Plant-Microbe Interactions","topic":"Plant Virus Research Studies","field":"Agricultural and Biological Sciences","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Ministry of Agriculture, Food and Rural Affairs; Agriculture and Agri-Food Canada; Vineland Research and Innovation Centre; Western University","funders":"Agriculture and Agri-Food Canada","keywords":"Complementary DNA; Plant virus; Gene; Amino acid; Phylogenetic tree; Genome; Virus; Coat protein","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":true,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001851158,0.0002581942,0.000332019,0.0001286956,0.000402651,0.0001847314,0.0001709432,0.0001027358,0.00004397284],"category_scores_gemma":[0.0001277507,0.0001430741,0.00008716516,0.000346745,0.0001058876,0.0002953804,0.0003371845,0.000280539,0.00004968839],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002623666,"about_ca_system_score_gemma":0.00001535403,"about_ca_topic_candidate":true,"about_ca_topic_consensus":true,"about_ca_topic_score_codex":0.00866409,"about_ca_topic_score_gemma":0.06035699,"domain_scores_codex":[0.998266,0.0003265526,0.0003586892,0.0004583802,0.000183861,0.0004064593],"domain_scores_gemma":[0.9993806,0.0002277461,0.0001280219,0.00009998918,0.00008291456,0.00008074868],"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":[0.0001873526,0.0001762916,0.002813721,0.00005994243,0.00005439333,0.0001010821,0.0001066569,0.000002612084,0.9941322,0.0000403994,0.0009485467,0.001376844],"study_design_scores_gemma":[0.0004332438,0.0001575593,0.01861127,0.0006923027,0.00002410091,0.00021381,0.0001143727,0.0001359327,0.973858,0.0000483455,0.005459023,0.0002520187],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9959863,0.0008140067,0.00001280273,0.0007690733,0.0001666571,0.001030945,0.0006865658,0.0001268527,0.0004067495],"genre_scores_gemma":[0.9983672,0.0001571223,0.00003280951,0.0002595267,0.00004958549,0.0003018151,0.0003339094,0.000002986412,0.0004950169],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.0516929,"threshold_uncertainty_score":0.9979373,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03785037062456992,"score_gpt":0.2771946274348451,"score_spread":0.2393442568102752,"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."}}