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Open Access Research article

Genomic sequencing and analysis of a Chinese hamster ovary cell line using Illumina sequencing technology

Stephanie Hammond12, Jeffrey C Swanberg12, Mihailo Kaplarevic2 and Kelvin H Lee12*

Author Affiliations

1 Department of Chemical Engineering, University of Delaware, Newark, DE 19711, USA

2 Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA

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BMC Genomics 2011, 12:67  doi:10.1186/1471-2164-12-67

Published: 26 January 2011



Chinese hamster ovary (CHO) cells are among the most widely used hosts for therapeutic protein production. Yet few genomic resources are available to aid in engineering high-producing cell lines.


High-throughput Illumina sequencing was used to generate a 1x genomic coverage of an engineered CHO cell line expressing secreted alkaline phosphatase (SEAP). Reference-guided alignment and assembly produced 3.57 million contigs and CHO-specific sequence information for ~ 18,000 mouse and ~ 19,000 rat orthologous genes. The majority of these genes are involved in metabolic processes, cellular signaling, and transport and represent attractive targets for cell line engineering.


This demonstrates the applicability of next-generation sequencing technology and comparative genomic analysis in the development of CHO genomic resources.