The genome of the chicken DT40 bursal lymphoma cell line

János Molnár, Ádám Póti, Orsolya Pipek, Marcin Krzystanek, Nnennaya Kanu, Charles Swanton, Gábor E. Tusnády, Zoltan Szallasi, István Csabai, Dávid Szüts

Research output: Article

12 Citations (Scopus)

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
Pages (from-to)2231-2240
Number of pages10
JournalG3: Genes, Genomes, Genetics
Volume4
Issue number11
DOIs
Publication statusPublished - jan. 1 2014

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ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Genetics(clinical)

Cite this

Molnár, J., Póti, Á., Pipek, O., Krzystanek, M., Kanu, N., Swanton, C., Tusnády, G. E., Szallasi, Z., Csabai, I., & Szüts, D. (2014). The genome of the chicken DT40 bursal lymphoma cell line. G3: Genes, Genomes, Genetics, 4(11), 2231-2240. https://doi.org/10.1534/g3.114.013482