The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells

Wippermann A, Rupp O, Brinkrolf K, Hoffrogge R, Noll T (2015)
Journal of Biotechnology 199: 38-46.

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Abstract
Chinese hamster ovary (CHO) cells represent the most commonly used production cell line for therapeutic proteins. By recent genome and transcriptome sequencing a basis was created for future investigations of genotype-phenotype relationships and for improvement of CHO cell productivity and product quality. In this context information is missing about DNA cytosine methylation as a crucial epigenetic modification and an important element in mammalian genome regulation and development. Here, we present the first DNA methylation map of a CHO cell line in single-base resolution that was generated by whole genome bisulfite sequencing combined with gene expression analysis by CHO microarrays. We show CHO DP-12 cells to exhibit global hypomethylation compared to a majority of mammalian methylomes and hypermethylation of CpG-dense regions at gene promoters called CpG islands. We also observed partially methylated domains that cover 62% of the CHO DP-12 cell genome and contain functional clusters of genes. Gene expression analysis showed these clusters to be either highly or weakly expressed with regard to CHO-specific characteristics and hence proves DNA methylation in CHO cells to be an important link between genomics and transcriptomics.
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Wippermann A, Rupp O, Brinkrolf K, Hoffrogge R, Noll T. The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Journal of Biotechnology. 2015;199:38-46.
Wippermann, A., Rupp, O., Brinkrolf, K., Hoffrogge, R., & Noll, T. (2015). The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Journal of Biotechnology, 199, 38-46. doi:10.1016/j.jbiotec.2015.01.014
Wippermann, A., Rupp, O., Brinkrolf, K., Hoffrogge, R., and Noll, T. (2015). The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Journal of Biotechnology 199, 38-46.
Wippermann, A., et al., 2015. The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Journal of Biotechnology, 199, p 38-46.
A. Wippermann, et al., “The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells”, Journal of Biotechnology, vol. 199, 2015, pp. 38-46.
Wippermann, A., Rupp, O., Brinkrolf, K., Hoffrogge, R., Noll, T.: The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Journal of Biotechnology. 199, 38-46 (2015).
Wippermann, Anna, Rupp, Oliver, Brinkrolf, Karina, Hoffrogge, Raimund, and Noll, Thomas. “The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells”. Journal of Biotechnology 199 (2015): 38-46.
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2 Citations in Europe PMC

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CMV promoter mutants with a reduced propensity to productivity loss in CHO cells.
Moritz B, Becker PB, Gopfert U., Sci Rep 5(), 2015
PMID: 26581326
Towards next generation CHO cell biology: Bioinformatics methods for RNA-Seq-based expression profiling.
Monger C, Kelly PS, Gallagher C, Clynes M, Barron N, Clarke C., Biotechnol J 10(7), 2015
PMID: 26058739

56 References

Data provided by Europe PubMed Central.

Transcription of IAP endogenous retroviruses is constrained by cytosine methylation.
Walsh CP, Chaillet JR, Bestor TH., Nat. Genet. 20(2), 1998
PMID: 9771701
Establishment of a CpG island microarray for analyses of genome-wide DNA methylation in Chinese hamster ovary cells
Wippermann, Appl. Microbiol. Biotechnol. 98(), 2013
The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line.
Xu X, Nagarajan H, Lewis NE, Pan S, Cai Z, Liu X, Chen W, Xie M, Wang W, Hammond S, Andersen MR, Neff N, Passarelli B, Koh W, Fan HC, Wang J, Gui Y, Lee KH, Betenbaugh MJ, Quake SR, Famili I, Palsson BO, Wang J., Nat. Biotechnol. 29(8), 2011
PMID: 21804562
DNA methylation contributes to loss in productivity of monoclonal antibody-producing CHO cell lines.
Yang Y, Mariati , Chusainow J, Yap MG., J. Biotechnol. 147(3-4), 2010
PMID: 20430058
Charting a dynamic DNA methylation landscape of the human genome.
Ziller MJ, Gu H, Muller F, Donaghey J, Tsai LT, Kohlbacher O, De Jager PL, Rosen ED, Bennett DA, Bernstein BE, Gnirke A, Meissner A., Nature 500(7463), 2013
PMID: 23925113

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