A comparative genomic hybridization approach to study gene copy number variations among chinese hamster cell lines

Nandita Vishwanathan, Arpan Bandyopadhyay, Hsu Yuan Fu, Kathryn C. Johnson, Nathan M Springer, Wei-Shou Hu

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Chinese Hamster Ovary (CHO) cells are aneuploid in nature. The genome of recombinant protein producing CHO cell lines continuously undergoes changes in its structure and organization. We analyzed nine cell lines, including parental cell lines, using a comparative genomic hybridization (CGH) array focused on gene-containing regions. The comparison of CGH with copy-number estimates from sequencing data showed good correlation. Hierarchical clustering of the gene copy number variation data from CGH data revealed the lineage relationships between the cell lines. On analyzing the clones of a clonal population, some regions with altered genomic copy number status were identified indicating genomic changes during passaging. A CGH array is thus an effective tool in quantifying genomic alterations in industrial cell lines and can provide insights into the changes in the genomic structure during cell line derivation and long term culture. Biotechnol. Bioeng. 2017;114: 1903–1908.

Original languageEnglish (US)
Pages (from-to)1903-1908
Number of pages6
JournalBiotechnology and Bioengineering
Volume114
Issue number8
DOIs
StatePublished - Aug 1 2017

Fingerprint

Comparative Genomic Hybridization
Gene Dosage
Cricetulus
Genes
Cells
Cell Line
Ovary
Recombinant proteins
Aneuploidy
Recombinant Proteins
Cluster Analysis
Cell culture
Clone Cells
Genome
Population

Keywords

  • Chinese hamster ovary cell lines
  • comparative genomic hybridization
  • copy number variants
  • sequencing

PubMed: MeSH publication types

  • Comparative Study
  • Journal Article
  • Research Support, Non-U.S. Gov't

Cite this

A comparative genomic hybridization approach to study gene copy number variations among chinese hamster cell lines. / Vishwanathan, Nandita; Bandyopadhyay, Arpan; Fu, Hsu Yuan; Johnson, Kathryn C.; Springer, Nathan M; Hu, Wei-Shou.

In: Biotechnology and Bioengineering, Vol. 114, No. 8, 01.08.2017, p. 1903-1908.

Research output: Contribution to journalArticle

Vishwanathan, Nandita ; Bandyopadhyay, Arpan ; Fu, Hsu Yuan ; Johnson, Kathryn C. ; Springer, Nathan M ; Hu, Wei-Shou. / A comparative genomic hybridization approach to study gene copy number variations among chinese hamster cell lines. In: Biotechnology and Bioengineering. 2017 ; Vol. 114, No. 8. pp. 1903-1908.
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