Open Access Research article

Unique features of the transcriptional response to model aneuploidy in human cells

Milena Dürrbaum13, Anastasia Yurievna Kuznetsova1, Verena Passerini1, Silvia Stingele1, Gabriele Stoehr24 and Zuzana Storchová13*

Author Affiliations

1 Group Maintenance of Genome Stability, Max Planck Institute of Biochemistry, Am Klopferspitz 18, Martinsried 82152, Germany

2 Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Am Klopferspitz 18, Martinsried 82152, Germany

3 Center for Integrated Protein Science Munich, Ludwig-Maximilian-University Munich, Munich 80336, Germany

4 Current address: Gene Center, Department of Biochemistry, Ludwig-Maximilians-University Munich, Munich 81377, Germany

For all author emails, please log on.

BMC Genomics 2014, 15:139  doi:10.1186/1471-2164-15-139

Published: 18 February 2014



Aneuploidy, a karyotype deviating from multiples of a haploid chromosome set, affects the physiology of eukaryotes. In humans, aneuploidy is linked to pathological defects such as developmental abnormalities, mental retardation or cancer, but the underlying mechanisms remain elusive. There are many different types and origins of aneuploidy, but whether there is a uniform cellular response to aneuploidy in human cells has not been addressed so far.


Here we evaluate the transcription profiles of eleven trisomic and tetrasomic cell lines and two cell lines with complex aneuploid karyotypes. We identify a characteristic aneuploidy response pattern defined by upregulation of genes linked to endoplasmic reticulum, Golgi apparatus and lysosomes, and downregulation of DNA replication, transcription as well as ribosomes. Strikingly, complex aneuploidy elicits the same transcriptional changes as trisomy. To uncover the triggers of the response, we compared the profiles with transcription changes in human cells subjected to stress conditions. Interestingly, we found an overlap only with the response to treatment with the autophagy inhibitor bafilomycin A1. Finally, we identified 23 genes whose expression is significantly altered in all aneuploids and which may thus serve as aneuploidy markers.


Our analysis shows that despite the variability in chromosome content, aneuploidy triggers uniform transcriptional response in human cells. A common response independent of the type of aneuploidy might be exploited as a novel target for cancer therapy. Moreover, the potential aneuploidy markers identified in our analysis might represent novel biomarkers to assess the malignant potential of a tumor.