ECI Digital Archives

Title

A reference genome for the Chinese hamster based on a hybrid assembly strategy

Authors

Kelvin H. Lee, University of Delaware, USA
Oliver Rupp, Justus-Liebig-University Giessen, Germany
Sven Griep, Justus-Liebig-University Giessen, Germany
Karina Brinkrolf, Justus-Liebig-University Giessen, Germany
Alexander Goesmann, Justus-Liebig-University Giessen, Germany
Kelley Heffner, Johns Hopkins University, USA
Haiping Hou, Johns Hopkins University, USA
Michael Betenbaugh, Johns Hopkins University, USA
Shangzhong Li, University of California, San Diego and Novo Nordisk Foundation Center for Biosustainability, UCSD, USA
Mojtaba Samoudi, University of California, San Diego and Novo Nordisk Foundation Center for Biosustainability, UCSD, USA
Nathan Lewis, University of California, San Diego and Novo Nordisk Foundation Center for Biosustainability, UCSD, USA
Heena Dhiman, BOKU University and ACIB Austrian Center of Biotechnology, Vienna, Austria
Inmaculada Hernandez, BOKU University and ACIB Austrian Center of Biotechnology, Vienna, Austria
Vaibhav Jadhav, BOKU University and ACIB Austrian Center of Biotechnology, Vienna, Austria
Nicole Borth, BOKU University and ACIB Austrian Center of Biotechnology, Vienna, Austria
Madolyn L. MacDonald, University of Delaware, USA
Shawn Polson, University of Delaware, USA
Brewster Kingham, University of Delaware, USA

Conference Dates

May 6-11, 2018

Abstract

Accurate and complete genome sequences are essential in biotechnology, especially to facilitate genome-based cell engineering efforts for the main production host of biotherapeutic proteins, Chinese hamster ovary (CHO) cells. While genome-enabled CHO cell engineering efforts promise to enhance drug production, the current genome assemblies for Cricetulus griseus, the Chinese hamster, are highly fragmented and replete with gap sequences and misassemblies, consistent with most short-read based assemblies. Here we have completely re-sequenced the Chinese hamster, C. griseus, using Single Molecule Real Time (SMRT) long-read technology and merged this assembly with Illumina-based assemblies.

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Recommended Citation

Kelvin H. Lee, Oliver Rupp, Sven Griep, Karina Brinkrolf, Alexander Goesmann, Kelley Heffner, Haiping Hou, Michael Betenbaugh, Shangzhong Li, Mojtaba Samoudi, Nathan Lewis, Heena Dhiman, Inmaculada Hernandez, Vaibhav Jadhav, Nicole Borth, Madolyn L. MacDonald, Shawn Polson, and Brewster Kingham, "A reference genome for the Chinese hamster based on a hybrid assembly strategy" in "Cell Culture Engineering XVI", A. Robinson, PhD, Tulane University R. Venkat, PhD, MedImmune E. Schaefer, ScD, J&J Janssen Eds, ECI Symposium Series, (2018). https://dc.engconfintl.org/ccexvi/1