{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Xi H"],"funding":["Australia Research Council Future Fellowship","National Natural Science Foundation of China","AW Howard Memorial Trust Postgraduate Research Fellowship","University of Adelaide Research Training Scholarships","Department of Industry, Science, Energy and Resources"],"pagination":["gigabyte38"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9650280"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["2022"],"pubmed_abstract":["<i>Vicia sativa</i> L. (common vetch, <i>n</i> = 6) is an annual, herbaceous, climbing legume, originating in the Fertile Crescent of the Middle East and now widespread in the Mediterranean basin, West, Central and Eastern Asia, North and South America. <i>V. sativa</i> is of economic importance as a forage legume in countries such as Australia, China, and the USA, and contributes valuable nitrogen to agricultural rotation cropping systems. To accelerate precision genome breeding and genomics-based selection of this legume, we present a chromosome-level reference genome sequence for <i>V. sativa</i>, constructed using a combination of long-read Oxford Nanopore sequencing, short-read Illumina sequencing, and high-throughput chromosome conformation data (CHiCAGO and Hi-C) analysis. The chromosome-level assembly of six pseudo-chromosomes has a total genome length of 1.65 Gbp, with a median contig length of 684 Kbp. BUSCO analysis of the assembly demonstrated very high completeness of 98% of the dicotyledonous orthologs. RNA-seq analysis and gene modelling enabled the annotation of 53,218 protein-coding genes. This <i>V. sativa</i> assembly will provide insights into vetch genome evolution and be a valuable resource for genomic breeding, genetic diversity and for understanding adaption to diverse arid environments."],"journal":["GigaByte (Hong Kong, China)"],"pubmed_title":["Chromosome-level assembly of the common vetch <i>(Vicia sativa)</i> reference genome."],"pmcid":["PMC9650280"],"funding_grant_id":["ACSRF 48187","31722055","FT130100525"],"pubmed_authors":["Xi H","Nguyen V","Liu Z","Searle IR","Ward C"],"additional_accession":[]},"is_claimable":false,"name":"Chromosome-level assembly of the common vetch <i>(Vicia sativa)</i> reference genome.","description":"<i>Vicia sativa</i> L. (common vetch, <i>n</i> = 6) is an annual, herbaceous, climbing legume, originating in the Fertile Crescent of the Middle East and now widespread in the Mediterranean basin, West, Central and Eastern Asia, North and South America. <i>V. sativa</i> is of economic importance as a forage legume in countries such as Australia, China, and the USA, and contributes valuable nitrogen to agricultural rotation cropping systems. To accelerate precision genome breeding and genomics-based selection of this legume, we present a chromosome-level reference genome sequence for <i>V. sativa</i>, constructed using a combination of long-read Oxford Nanopore sequencing, short-read Illumina sequencing, and high-throughput chromosome conformation data (CHiCAGO and Hi-C) analysis. The chromosome-level assembly of six pseudo-chromosomes has a total genome length of 1.65 Gbp, with a median contig length of 684 Kbp. BUSCO analysis of the assembly demonstrated very high completeness of 98% of the dicotyledonous orthologs. RNA-seq analysis and gene modelling enabled the annotation of 53,218 protein-coding genes. This <i>V. sativa</i> assembly will provide insights into vetch genome evolution and be a valuable resource for genomic breeding, genetic diversity and for understanding adaption to diverse arid environments.","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022","modification":"2025-04-04T14:17:53.306Z","creation":"2025-02-19T02:23:59.385Z"},"accession":"S-EPMC9650280","cross_references":{"pubmed":["36824524"],"doi":["10.46471/gigabyte.38"]}}