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A chromosome-level assembly of the seed beetle Callosobruchus maculatus genome with annotation of its repetitive elements
Stockholm University, Faculty of Science, Department of Ecology, Environment and Plant Sciences. Uppsala University, Sweden.ORCID iD: 0009-0003-2602-7420
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Number of Authors: 112024 (English)In: G3: Genes, Genomes, Genetics, E-ISSN 2160-1836, Vol. 14, no 2, article id jkad266Article in journal (Refereed) Published
Abstract [en]

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 chromosome-level genome assembly of C. maculatus will enable future genetic and evolutionary studies not only of this important species but of beetles more generally. 

Place, publisher, year, edition, pages
2024. Vol. 14, no 2, article id jkad266
Keywords [en]
Chrysomelidae, chromosome conformation capture, X chromosome assembly, transposable elements, Tc1-Mariner
National Category
Genetics
Identifiers
URN: urn:nbn:se:su:diva-225411DOI: 10.1093/g3journal/jkad266ISI: 001123598000001PubMedID: 38092066Scopus ID: 2-s2.0-85184664621OAI: oai:DiVA.org:su-225411DiVA, id: diva2:1828250
Available from: 2024-01-16 Created: 2024-01-16 Last updated: 2024-02-21Bibliographically approved

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Westerberg, IvarOlsen, Remi-AndréBonath, Franziska

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Westerberg, IvarOlsen, Remi-AndréBonath, Franziska
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Department of Ecology, Environment and Plant SciencesDepartment of Biochemistry and BiophysicsScience for Life Laboratory (SciLifeLab)Department of Molecular Biosciences, The Wenner-Gren Institute
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G3: Genes, Genomes, Genetics
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