{"id":"W4409842928","doi":"10.1101/2025.04.24.650499","title":"From Fragmentation to Resolution: High-Fidelity Genome Assembly of <i>Zancudomyces culisetae</i> through Comparative Insights from PacBio, Nanopore, and Illumina Sequencing","year":2025,"lang":"en","type":"preprint","venue":"bioRxiv (Cold Spring Harbor Laboratory)","topic":"Insect symbiosis and bacterial influences","field":"Agricultural and Biological Sciences","cited_by":1,"is_retracted":false,"has_abstract":true,"ca_institutions":"The Scarborough Hospital; University of Toronto","funders":"Natural Sciences and Engineering Research Council of Canada; Innovation, Science and Economic Development Canada","keywords":"Biology; Genome; Sequence assembly; Nanopore sequencing; Hybrid genome assembly; Illumina dye sequencing; Genome size; Obligate; Contig; DNA sequencing; Comparative genomics; Whole genome sequencing; Genetics; Shotgun sequencing; Computational biology; Genomics; Gene; Transcriptome; Ecology","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":[0.0007161542,0.0005985316,0.0005548016,0.0006506206,0.0005223911,0.001309942,0.0005367307,0.0004713148,0.0008387623],"category_scores_gemma":[0.001240683,0.0003508743,0.0006680698,0.0007405949,0.0003063648,0.0004936059,0.000612848,0.0009903258,0.0008827863],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.000485784,"about_ca_system_score_gemma":0.0006018933,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.003760386,"about_ca_topic_score_gemma":0.004133791,"domain_scores_codex":[0.9994798,0.00005368975,0.00004509108,0.0001607126,0.0001929771,0.00006770548],"domain_scores_gemma":[0.9994726,0.00009757853,0.0001218439,0.00009255994,0.0001555988,0.00005977829],"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":[0.0001425084,0.00002188377,0.002410325,0.0002865297,0.00005855703,0.0002314505,0.0001699192,0.001882072,0.9790434,0.0003491397,0.0007947054,0.0146095],"study_design_scores_gemma":[0.0000311929,0.0002092977,0.03854989,0.0001504618,0.000204557,0.0008895934,0.0002876996,0.0234727,0.8981248,0.0006892458,0.03730693,0.00008374731],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.8011497,0.004480829,0.1710098,0.0005690121,0.000173033,0.000373236,0.01331267,0.003463089,0.005468552],"genre_scores_gemma":[0.6999218,0.002852909,0.259087,0.0003104479,0.0000517194,0.0003169515,0.03358213,0.0009383345,0.002938657],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.003760386,"threshold_uncertainty_score":0.007477045,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02739553668865917,"score_gpt":0.2368414228796254,"score_spread":0.2094458861909662,"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."}}