Communication to the Editor

Profiling conserved microRNA expression in recombinant CHO cell lines using illumina sequencing

  1. Stephanie Hammond1,2,
  2. Jeffrey C. Swanberg1,2,
  3. Shawn W. Polson2,3,
  4. Kelvin H. Lee1,2,*

Article first published online: 23 JAN 2012

DOI: 10.1002/bit.24415

Issue

Biotechnology and Bioengineering

Biotechnology and Bioengineering

Special Issue: CHO Cell Genomics Special Section

Volume 109, Issue 6, pages 1371–1375, June 2012

Additional Information

How to Cite

Hammond, S., Swanberg, J. C., Polson, S. W. and Lee, K. H. (2012), Profiling conserved microRNA expression in recombinant CHO cell lines using illumina sequencing. Biotechnol. Bioeng., 109: 1371–1375. doi: 10.1002/bit.24415

Author Information

  1. 1

    Department of Chemical Engineering, University of Delaware, Newark, Delaware

  2. 2

    Delaware Biotechnology Institute, University of Delaware, 15 Innovation Way, Newark, Delaware 19711; telephone: +1-302-831-0344; fax: +1-302-831-4841

  3. 3

    Center for Bioinformatics and Computational Biology, University of Delaware, Newark, Delaware

*Department of Chemical Engineering, University of Delaware, Newark, Delaware.

Publication History

  1. Issue published online: 18 APR 2012
  2. Article first published online: 23 JAN 2012
  3. Accepted manuscript online: 21 DEC 2011 08:09AM EST
  4. Manuscript Accepted: 13 DEC 2011
  5. Manuscript Revised: 9 DEC 2011
  6. Manuscript Received: 14 OCT 2011

Funded by

  • NSF. Grant Number: 1124627
  • NIST. Grant Number: 60NANB11D185
  • US National Institutes of Health (NIH). Grant Number: 2P0RR016472-10

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Keywords:

  • Chinese hamster ovary cells;
  • microRNA profiling;
  • next-generation sequencing

Abstract

MicroRNAs (miRNAs) are small, non-coding RNAs that regulate multiple aspects of cell physiology. The differential expression of conserved miRNAs in two Chinese hamster ovary (CHO) cell lines producing recombinant proteins was examined relative to the CHO-K1 cell line. A total of 190 conserved CHO miRNAs were identified through homology with known human and rodent miRNAs. More than 80% of these miRNAs showed differential expression in recombinant CHO cell lines. The small RNA sequencing data were analyzed in context of the CHO-K1 genome to examine miRNA organization and develop sequence-specific miRNA resources for CHO cells. The identification and characterization of CHO miRNAs will facilitate the use of miRNA tools in cell line engineering efforts to improve product yield and quality. Biotechnol. Bioeng. 2012; 109:1371–1375. © 2011 Wiley Periodicals, Inc.

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