TY  - JOUR
ID  - discovery10205416
N1  - Copyright © 2014 Molnar et al.
This is an open-access article distributed under the terms of the Creative
Commons Attribution Unported License (http://creativecommons.org/licenses/
by/3.0/), which permits unrestricted use, distribution, and reproduction in any
medium, provided the original work is properly cited.
SN  - 2160-1836
EP  - 2240
JF  - G3-GENES GENOMES GENETICS
AV  - public
N2  - 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.
VL  - 4
SP  - 2231
UR  - https://doi.org/10.1534/g3.114.013482
TI  - The Genome of the Chicken DT40 Bursal Lymphoma Cell Line
KW  - Science & Technology
KW  -  Life Sciences & Biomedicine
KW  -  Genetics & Heredity
KW  -  DT40
KW  -  gene targeting
KW  -  tumor suppressor gene
KW  -  chicken genome
KW  -  single nucleotide polymorphism
KW  -  CANCER
KW  -  GENE
KW  -  IDENTIFICATION
KW  -  INTEGRATION
KW  -  EXPRESSION
KW  -  SEQUENCE
KW  -  MUTATION
KW  -  REPEAT
KW  -  FORMAT
IS  - 11
A1  - Molnar, Janos
A1  - Poti, Adam
A1  - Pipek, Orsolya
A1  - Krzystanek, Marcin
A1  - Kanu, Nnennaya
A1  - Swanton, Charles
A1  - Tusnady, Gabor E
A1  - Szallasi, Zoltan
A1  - Csabai, Istvan
A1  - Szuets, David
PB  - OXFORD UNIV PRESS INC
Y1  - 2014/11/01/
ER  -