biostudies-literatureArnqvist GFORMASEuropean Research CouncilSwedish Research Counciljkad266https://www.ebi.ac.uk/biostudies/studies/S-EPMC10849321biostudies-literatureUnknown14(2)Callosobruchus maculatus is a major agricultural pest of legume crops worldwide and an established model system in ecology and evolution. Yet, current molecular biological resources for this species are limited. Here, we employ Hi-C sequencing to generate a greatly improved genome assembly and we annotate its repetitive elements in a dedicated in-depth effort where we manually curate and classify the most abundant unclassified repeat subfamilies. We present a scaffolded chromosome-level assembly, which is 1.01 Gb in total length with 86% being contained within the 9 autosomes and the X chromosome. Repetitive sequences accounted for 70% of the total assembly. DNA transposons covered 18% of the genome, with the most abundant superfamily being Tc1-Mariner (9.75% of the genome). This new chromG3 (Bethesda, Md.)A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements.PMC10849321AdG-2943332016-051392017-01597294333621-2014-45232019-036112018-00705Scofield DGSayadi AImmonen EArnqvist GGalbraith JBonath FEwels PWesterberg IOlsen RASuh AfalseA chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements.Callosobruchus maculatus is a major agricultural pest of legume crops worldwide and an established model system in ecology and evolution. Yet, current molecular biological resources for this species are limited. Here, we employ Hi-C sequencing to generate a greatly improved genome assembly and we annotate its repetitive elements in a dedicated in-depth effort where we manually curate and classify the most abundant unclassified repeat subfamilies. We present a scaffolded chromosome-level assembly, which is 1.01 Gb in total length with 86% being contained within the 9 autosomes and the X chromosome. Repetitive sequences accounted for 70% of the total assembly. DNA transposons covered 18% of the genome, with the most abundant superfamily being Tc1-Mariner (9.75% of the genome). This new chrom2024-01-01T00:00:00Z2024 Feb2025-04-04T08:07:51.724Z2025-02-18T23:15:27.83ZS-EPMC108493213809206610.1093/g3journal/jkad266