{"id":"W2885488593","doi":"10.1038/s41396-018-0254-2","title":"Extrachromosomal circular elements targeted by CRISPR-Cas in <i>Dehalococcoides mccartyi</i> are linked to mobilization of reductive dehalogenase genes","year":2018,"lang":"en","type":"article","venue":"The ISME Journal","topic":"Bacterial Genetics and Biotechnology","field":"Biochemistry, Genetics and Molecular Biology","cited_by":21,"is_retracted":false,"has_abstract":true,"ca_institutions":"University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Strategic Environmental Research and Development Program; Ontario Genomics Institute; Government of Ontario; Canadian Institutes of Health Research; Ontario Genomics; Genome Canada; Government of Canada; U.S. Department of Defense","keywords":"Biology; Genome; Extrachromosomal DNA; Prophage; CRISPR; Dehalogenase; Genetics; Genomic island; Metagenomics; Horizontal gene transfer; Gene; Bacteriophage; Escherichia coli","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":[0.0003539894,0.0001657094,0.0001940997,0.00007938044,0.0001268608,0.00002833949,0.0003570546,0.0002261814,0.00004124311],"category_scores_gemma":[0.00008876399,0.0001268052,0.00007523048,0.0002011455,0.0001901541,0.000005833194,0.0001285848,0.0001648665,0.000006250703],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00003166272,"about_ca_system_score_gemma":0.00007230047,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00002008704,"about_ca_topic_score_gemma":0.00005870374,"domain_scores_codex":[0.9987292,0.0001346142,0.0004306165,0.0002587142,0.000150164,0.0002966753],"domain_scores_gemma":[0.9990698,0.000007080918,0.0002715757,0.0003143161,0.0002536172,0.00008367011],"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":[0.0001028482,0.0001054583,0.002644927,0.00000605679,0.00005414123,0.000003946156,0.0001251871,0.00004008249,0.9931731,0.000006605153,0.001432017,0.002305632],"study_design_scores_gemma":[0.0005181372,0.0006742916,0.008123147,0.00002274373,0.00002653804,0.00008347661,0.0002971569,0.00003983354,0.9816553,0.0001827025,0.008219041,0.0001576193],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9956619,0.001317477,0.001748867,0.000612449,0.0003129345,0.0002655453,0.00004945088,0.000006146903,0.00002528662],"genre_scores_gemma":[0.9978417,0.0004065733,0.0008529943,0.0002310444,0.0005485571,0.00001334699,0.00003621315,0.0000227769,0.0000467957],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.01151779,"threshold_uncertainty_score":0.5170966,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.009534215766656716,"score_gpt":0.2539120589980622,"score_spread":0.2443778432314055,"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."}}