{"id":"W4416143776","doi":"10.1128/mra.00738-25","title":"Complete genome sequence of <i>Pediococcus pentosaceus</i> TOKAI 10m isolated from Japanese Takuan pickle","year":2025,"lang":"en","type":"article","venue":"Microbiology Resource Announcements","topic":"Genomics and Phylogenetic Studies","field":"Biochemistry, Genetics and Molecular Biology","cited_by":0,"is_retracted":false,"has_abstract":true,"ca_institutions":"Probity Medical Research","funders":"","keywords":"Whole genome sequencing; Plasmid; Genome; Gene; Virulence; Chromosome; Sequence (biology)","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":"codex-gemma-dda1882f352a","candidate_categories":["metaepi_narrow"],"consensus_categories":[],"category_scores_codex":[0.0001587519,0.000286791,0.0003959978,0.00007611878,0.0001563522,0.00001600156,0.0005351521,0.0002332794,0.00004383126],"category_scores_gemma":[0.00003063228,0.0002793403,0.0001294063,0.0001658768,0.0003210051,0.000001260326,0.0004838256,0.0001193427,0.00002322321],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003017966,"about_ca_system_score_gemma":0.00007663344,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0002401916,"about_ca_topic_score_gemma":0.00006175599,"domain_scores_codex":[0.9983278,0.000116677,0.0004577831,0.0006120453,0.00005810658,0.0004275889],"domain_scores_gemma":[0.998979,0.00002606143,0.0001938667,0.0005999741,0.0001451671,0.00005597395],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"not_applicable","study_design_scores_codex":[0.0001986367,0.00008831664,0.009372193,0.00001912851,0.000405493,0.000002894543,0.0002615235,0.00006796529,0.9855374,0.000008080408,0.003891642,0.0001467168],"study_design_scores_gemma":[0.001171179,0.0003863845,0.001531141,0.00002985933,0.00007374072,0.00000850751,0.0003769147,0.00001516054,0.0236757,0.00004450412,0.9723865,0.000300357],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9851192,0.004557854,0.000141931,0.0002423081,0.0002819298,0.0003796955,0.007030037,0.000008757152,0.002238277],"genre_scores_gemma":[0.9860713,0.0003103027,0.000263171,0.001681291,0.0001109058,0.00003525732,0.00815341,0.00002232311,0.003352047],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.9684949,"threshold_uncertainty_score":0.9999659,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01474287343102597,"score_gpt":0.2443765683898018,"score_spread":0.2296336949587759,"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."}}