{"id":"W2004804197","doi":"10.1371/journal.pone.0106380","title":"Long Distance Linkage Disequilibrium and Limited Hybridization Suggest Cryptic Speciation in Atlantic Cod","year":2014,"lang":"en","type":"article","venue":"PLoS ONE","topic":"Genetic diversity and population structure","field":"Biochemistry, Genetics and Molecular Biology","cited_by":42,"is_retracted":false,"has_abstract":true,"ca_institutions":"Dalhousie University; Memorial University of Newfoundland; Fisheries and Oceans Canada","funders":"Genome Atlantic; Natural Sciences and Engineering Research Council of Canada; Atlantic Canada Opportunities Agency; Genome Canada","keywords":"Reproductive isolation; Biology; Hybrid zone; Introgression; Linkage disequilibrium; Evolutionary biology; Genetics; Species complex; Gene flow; Hybrid; Genetic algorithm; Gadus; Population; Genetic variation; Phylogenetic tree; Haplotype; Gene; Genotype; Fishery","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":[0.000312325,0.0001226443,0.0001971292,0.0006729711,0.0004105981,0.0004574345,0.0002347648,0.0002268082,0.0009058887],"category_scores_gemma":[0.0006535564,0.0001281021,0.000147833,0.0004417188,0.0005015231,0.0002374863,0.0005024244,0.000284266,0.0001011616],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0002684708,"about_ca_system_score_gemma":0.0002064561,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.002601078,"about_ca_topic_score_gemma":0.00753607,"domain_scores_codex":[0.99983,0.00002729616,0.00001995975,0.00006879965,0.000029743,0.00002410808],"domain_scores_gemma":[0.9995362,0.0001474974,0.0001578174,0.00005481331,0.00004562726,0.00005812476],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"observational","study_design_gemma":"observational","study_design_scores_codex":[0.0003270655,0.00004631477,0.7807414,0.0001099834,0.0002015999,0.0004011814,0.001067682,0.0005551186,0.2016504,0.0006611613,0.00005996241,0.01417807],"study_design_scores_gemma":[0.00001017122,0.00004506366,0.9956934,0.000009637938,0.00003481898,0.0002000011,0.0004186286,0.000666161,0.002265854,0.0004387527,0.0002085233,0.000008823183],"study_design_candidate":"observational","study_design_consensus":"observational","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9993463,0.00008587004,0.0001872181,0.00001205724,7.435176e-7,0.000001323665,0.000020072,0.000003971833,0.00034246],"genre_scores_gemma":[0.9996881,0.00003455349,0.000170248,0.000014437,0.00000170363,0.000001511019,0.00003344594,0.000001247671,0.00005477927],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.002601078,"threshold_uncertainty_score":0.005171895,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.01385884367591381,"score_gpt":0.1934714471483106,"score_spread":0.1796126034723968,"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."}}