{"id":"W2239226089","doi":"10.1186/s12864-016-2381-3","title":"Increasing genomic diversity and evidence of constrained lifestyle evolution due to insertion sequences in Aeromonas salmonicida","year":2016,"lang":"en","type":"article","venue":"BMC Genomics","topic":"Aquaculture disease management and microbiota","field":"Immunology and Microbiology","cited_by":54,"is_retracted":false,"has_abstract":true,"ca_institutions":"Université Laval; Institut universitaire de cardiologie et de pneumologie de Québec","funders":"Fonds de Recherche du Québec - Santé; Natural Sciences and Engineering Research Council of Canada; Fonds de recherche du Québec – Nature et technologies; National Brain Research Centre; Ministère de l'Agriculture, des Pêcheries et de l'Alimentation","keywords":"Aeromonas salmonicida; Biology; Subspecies; Genome; Genetics; Phylogenetic tree; Comparative genomics; Phylogenetics; Gene; Insertion sequence; Pseudogene; Psychrophile; Aeromonas; Genomics; Genome evolution; Evolutionary biology; Bacteria; Zoology","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":[],"consensus_categories":[],"category_scores_codex":[0.0003391118,0.0001167364,0.0001899835,0.0001152706,0.0001605253,0.000006078032,0.0001584364,0.0001066519,0.00002956439],"category_scores_gemma":[0.0001403962,0.00009399639,0.00003938176,0.00009008492,0.0001715785,0.0001218399,0.0004831869,0.00005305091,0.0000611241],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002000296,"about_ca_system_score_gemma":0.00007386385,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.0009701173,"about_ca_topic_score_gemma":0.001023135,"domain_scores_codex":[0.9991534,0.0001555515,0.0002180926,0.000254651,0.00002058643,0.0001977408],"domain_scores_gemma":[0.9995518,0.0001334156,0.0001064639,0.0001443987,0.00003717725,0.00002678823],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0003278901,0.00002451538,0.1838154,0.00003204789,0.00002183599,0.000002529611,0.0005857793,0.000007272537,0.8143026,0.000365813,0.00004778436,0.0004665799],"study_design_scores_gemma":[0.001645773,0.000179336,0.9412121,0.0004146476,0.00008919163,0.0000625531,0.0009262239,0.000007252979,0.0543673,0.0003771323,0.0004005655,0.0003179099],"study_design_candidate":"observational","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9966566,0.001853749,0.0008273759,0.0001579101,0.0001294852,0.0002930109,0.00001891429,0.00001975464,0.00004321949],"genre_scores_gemma":[0.9991816,0.00008733963,0.0004910433,0.0000500809,0.00001193287,0.000004158999,0.000007535087,0.000005945075,0.000160317],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.7599353,"threshold_uncertainty_score":0.3833061,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02251305847529528,"score_gpt":0.2319576392885618,"score_spread":0.2094445808132665,"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."}}