{"doi":"10.1101/2025.09.12.675711","title":"The Annotated Blueprint: Integrated Functional Genomic Resources for a model Tetraploid Wheat <i>Triticum turgidum</i> cv. Kronos","abstract":"cv. Kronos is a tetraploid wheat cultivar that underpins one of the richest community platforms for functional genomics. Over the past decade, about 3,000 exome- and promoter-capture datasets, linked to mutagenized seed stocks, and transcriptomic and phenotypic resources have accumulated, yet the absence of a reference genome has constrained their impact. Here, we present a chromosome-scale reference genome of Kronos with high-confidence annotations, including manual curation of over 1,000 disease resistance (NLR) genes. This reference revealed previously hidden NLR diversity and clarified their genomic organization at chromosomal ends. Re-analysis of exome- and promoter-capture datasets enabled high-resolution mutation discovery in genes and regulatory regions that were previously inaccessible, uncovering the full standing variation present in Kronos mutant lines. We further re-curated transcriptomic and small RNA datasets, generating improved, genome-wide maps of microRNAs and phasiRNAs important for wheat development. Collectively, these resources elevate Kronos to reference quality and establish it as a versatile platform for functional and translational wheat research.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2025,"id":575082,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":0.0,"corpus_rank":10062,"citation_count":0,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.9533,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2025-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":1483085,"name":"Rakesh Kumar","orcid":"0000-0003-0811-5657","position":1,"is_corresponding":false},{"id":55219,"name":"Daniil M. Prigozhin","orcid":"0000-0003-2075-0231","position":2,"is_corresponding":false},{"id":948031,"name":"China Lunde","orcid":"0000-0003-0513-9709","position":3,"is_corresponding":false},{"id":1483086,"name":"Thales Henrique Cherubino Ribeiro","orcid":"0000-0003-2675-7004","position":4,"is_corresponding":false},{"id":561882,"name":"Sébastien Bélanger","orcid":"0000-0002-6755-8207","position":5,"is_corresponding":false},{"id":1089915,"name":"Jo‐Wei Allison Hsieh","orcid":"0000-0001-7017-3853","position":6,"is_corresponding":false},{"id":1483087,"name":"McCree Tang","orcid":"0009-0004-8129-1344","position":7,"is_corresponding":false},{"id":255908,"name":"Blake C. Meyers","orcid":"0000-0003-3436-6097","position":8,"is_corresponding":false},{"id":14610,"name":"Ksenia V. Krasileva","orcid":"0000-0002-1679-0700","position":9,"is_corresponding":false},{"id":986766,"name":"Kyungyong Seong","orcid":"0000-0002-7711-0107","position":0,"is_corresponding":true}],"reference_count":152,"raw_metadata":null,"created_at":"2026-07-19T02:57:48.486077Z","pmid":"41000772","pmcid":"PMC12458211","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}