The Genome of the Chicken DT40 Bursal Lymphoma Cell Line

Janos Molnar, Adam Poti, Orsolya Pipek, Marcin Krzystanek, Nnennaya Kanu, Charles Swanton, Gabor E. Tusnady, Zoltan Imre Szallasi, Istvan Csabai, David Szuets

    Research output: Contribution to journalJournal articleResearchpeer-review

    226 Downloads (Pure)

    Abstract

    The chicken DT40 cell line is a widely used model system in the study of multiple cellular processes due to the efficiency of homologous gene targeting. The cell line was derived from a bursal lymphoma induced by avian leukosis virus infection. In this study we characterized the genome of the cell line using whole genome shotgun sequencing and single nucleotide polymorphism array hybridization. The results indicate that wild-type DT40 has a relatively normal karyotype, except for whole chromosome copy number gains, and no karyotype variability within stocks. In a comparison to two domestic chicken genomes and the Gallus gallus reference genome, we found no unique mutational processes shaping the DT40 genome except for a mild increase in insertion and deletion events, particularly deletions at tandem repeats. We mapped coding sequence mutations that are unique to the DT40 genome; mutations inactivating the PIK3R1 and ATRX genes likely contributed to the oncogenic transformation. In addition to a known avian leukosis virus integration in the MYC gene, we detected further integration sites that are likely to de-regulate gene expression. The new findings support the hypothesis that DT40 is a typical transformed cell line with a relatively intact genome; therefore, it is well-suited to the role of a model system for DNA repair and related processes. The sequence data generated by this study, including a searchable de novo genome assembly and annotated lists of mutated genes, will support future research using this cell line.
    Original languageEnglish
    JournalG3: Genes, Genomes, Genetics (Bethesda)
    Volume4
    Issue number11
    Pages (from-to)2231-2240
    Number of pages10
    ISSN2160-1836
    DOIs
    Publication statusPublished - 2014

    Fingerprint Dive into the research topics of 'The Genome of the Chicken DT40 Bursal Lymphoma Cell Line'. Together they form a unique fingerprint.

    Cite this