Comprehensive genome and epigenome characterization of CHO cells in response to evolutionary pressures and over time
Open accessAbstract
The most striking characteristic of CHO cells is their adaptability, which enables efficient production of proteins as well as growth under a variety of culture conditions, but also results in genomic and phenotypic instability. To investigate the relative contribution of genomic and epigenetic modifications towards phenotype evolution, comprehensive genome and epigenome data are presented for six related CHO cell lines, both in response to perturbations (different culture conditions and media as well as selection of a specific phenotype with increased transient productivity) and in steady state (prolonged time in culture under constant conditions). Clear transitions were observed in DNA-methylation patterns upon each perturbation, while few changes occurred over time under constant conditions. Only minor DNA-methylation changes were observed between exponential and stationary growth phase; however, throughout a batch culture the histone modification pattern underwent continuous adaptation. Variation in genome sequence between the six cell lines on the level of SNPs, InDels, and structural variants is high, both upon perturbation and under constant conditions over time. The here presented comprehensive resource may open the door to improved control and manipulation of gene expression during industrial bioprocesses based on epigenetic mechanisms. Biotechnol. Bioeng. 2016;113: 2241-2253. © 2016 The Authors. Biotechnology and Bioengineering Published by Wiley Periodicals, Inc.
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Advances in various omics technologies have significantly improved understanding of CHO cells at different levels and enabled rational targeting of glycosylation effectors for improved biopharmaceutical production.
“Advances in various omics technologies have significantly improved our understanding of CHO cells at different levels and enabled the rational targeting of glycosylation effectors for improved biopharmaceutical production [27,71,72,150–152].”
From Glycoengineering Chinese hamster ovary cells: a short history (2021) · cites this paper as [150]
The Introduction describes genome and transcriptome data on CHO cells, and the Discussion says the study’s genome and epigenome data will improve understanding of these cells and may guide future control of industrial bioprocesses (pages not provided). The paper does not report that omics advances enabled rational targeting of glycosylation effectors; its proposed targeting concerns epigenetic control of gene expression. (LLM, conf=0.86)
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- Authors
- Feichtinger, J., Hernández, I., Fischer, C., Hanscho, M., Auer, N., Hackl, M., Jadhav, V., Baumann, M., Krempl, P. M., Schmidl, C., Farlik, M., Schuster, M., Merkel, A., Sommer, A., Heath, S., Rico, D., Bock, C., Thallinger, G. G., & Borth, N.
- Affiliations
- Graz University of Technology (AT)
- Austrian Centre of Industrial Biotechnology (Austria) (AT)
- BOKU University (AT)
- Austrian Academy of Sciences (AT)
- Centre for Genomic Regulation (ES)
- Research Institute of Molecular Pathology (AT)
- Spanish National Cancer Research Centre (ES)
- Corresponding author
- Borth, Nicole
- ORCID
- Venue
- Biotechnology and Bioengineering
- Publisher
- Wiley
- Published
- 2016-04-29
- Volume
- 113
- Issue
- 10
- Pages
- 2241-2253
- ISSN
- 0006-3592 (ISSN-L)
- 1097-0290
- PMC
- PMC5006888
- OpenAlex
- W2340837533
- Cited by
- 148
- References
- 67
- Citations by year
- 2026: 12 · 2025: 11 · 2024: 16 · 2023: 7 · 2022: 11 · 2021: 19 · 2020: 15 · 2019: 18 · 2018: 21 · 2017: 16 · 2016: 2
- FWCI
- 9.88
- Type
- journal article
- Language
- en
- Open access
- hybrid
- doi.org
- Licence
- Locations
- Biotechnology and Bioengineering (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Repositori digital de la UPF (Universitat Pompeu Fabra) (submittedVersion, cc-by)
- Newcastle University ePrints (Newcastle Univesity) (cc-by)
- Funders
- Austrian Centre of Industrial Biotechnology
- Austrian Research Promotion Agency
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Viral Infectious Diseases and Gene Expression in Insects
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Keywords
- CHO cells, genome evolution, epigenome, DNA methylation, histone modifications, genomic instability, phenotypic evolution, culture conditions, batch culture, growth phase, structural variants, single nucleotide polymorphisms, indels, recombinant protein expression
- MeSH terms
- Adaptation, Physiological, Animals, Cricetulus, Selection, Genetic, Time Factors, Genetic Variation, CHO Cells, Genome, Evolution, Molecular, Polymorphism, Single Nucleotide, Genomic Instability, Epigenesis, Genetic
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