The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line
Xun Xu,Harish Nagarajan,Nathan E. Lewis,Shengkai Pan,Zhiming Cai,Xin Liu,Wenbin Chen,Min Xie,Wenliang Wang,Stephanie Hammond,Mikael Rørdam Andersen,Norma F. Neff,Benedetto Passarelli,Winston Koh,H. Christina Fan,Jianbin Wang,Yaoting Gui,Kelvin H. Lee,Michael J. Betenbaugh,Michael J. Betenbaugh,Stephen R. Quake,Iman Famili,Bernhard O. Palsson,Jun Wang +23 more
TLDR
A draft genomic sequence of the CHO-K1 ancestral cell line is presented and it is discussed how the availability of this genome sequence may facilitate genome-scale science for the optimization of biopharmaceutical protein production.Abstract:
Chinese hamster ovary (CHO)-derived cell lines are the preferred host cells for the production of therapeutic proteins. Here we present a draft genomic sequence of the CHO-K1 ancestral cell line. The assembly comprises 2.45 Gb of genomic sequence, with 24,383 predicted genes. We associate most of the assembled scaffolds with 21 chromosomes isolated by microfluidics to identify chromosomal locations of genes. Furthermore, we investigate genes involved in glycosylation, which affect therapeutic protein quality, and viral susceptibility genes, which are relevant to cell engineering and regulatory concerns. Homologs of most human glycosylation-associated genes are present in the CHO-K1 genome, although 141 of these homologs are not expressed under exponential growth conditions. Many important viral entry genes are also present in the genome but not expressed, which may explain the unusual viral resistance property of CHO cell lines. We discuss how the availability of this genome sequence may facilitate genome-scale science for the optimization of biopharmaceutical protein production.read more
Citations
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Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma
Wing-Kin Sung,Hancheng Zheng,Shuyu Li,Ronghua Chen,Xiao Liu,Yingrui Li,Nikki P. Lee,Wah Heng Lee,Pramila N. Ariyaratne,Chandana Tennakoon,Fabianus Hendriyan Mulawadi,Kwong F. Wong,Angela M. Liu,Ronnie T.P. Poon,Sheung Tat Fan,KL Chan,Zhuolin Gong,Yujie Hu,Zhao Lin,Guan Wang,Qinghui Zhang,Thomas D. Barber,Wen-Chi Chou,Amit Aggarwal,Ke Hao,Wei Zhou,Chunsheng Zhang,James S. Hardwick,James S. Hardwick,Carolyn A. Buser,Jiangchun Xu,Zhengyan Kan,Hongyue Dai,Mao Mao,Mao Mao,Christoph Reinhard,Jun Wang,Jun Wang,John M. Luk +38 more
TL;DR: Evidence is reported that suggests that the number of HBV integrations is associated with patient survival and copy-number variations were significantly increased at HBV breakpoint locations where chromosomal instability was likely induced.
Journal ArticleDOI
Control of mucin-type O-glycosylation: A classification of the polypeptide GalNAc-transferase gene family
Eric P. Bennett,Ulla Mandel,Henrik Clausen,Thomas A. Gerken,Timothy A. Fritz,Lawrence A. Tabak +5 more
TL;DR: An overview of the GalNAc-T gene family in animals is presented and a classification of the genes into subfamilies, which appear to be conserved in evolution structurally as well as functionally are proposed.
Journal ArticleDOI
CHO cells in biotechnology for production of recombinant proteins: current state and further potential.
TL;DR: This review article focuses on current strategies and achievements in cell line development, mainly in vector engineering and cell engineering, for high and stable protein production in rCHO cells.
Journal ArticleDOI
Genome sequence of foxtail millet ( Setaria italica ) provides insights into grass evolution and biofuel potential
Gengyun Zhang,Xin Liu,Zhiwu Quan,Shifeng Cheng,Xun Xu,Shengkai Pan,Min Xie,Peng Zeng,Zhen Yue,Wenliang Wang,Ye Tao,Chao Bian,Changlei Han,Qiuju Xia,Xiaohua Peng,Rui Cao,Xinhua Yang,Dongliang Zhan,Jingchu Hu,Yinxin Zhang,Henan Li,Li Hua,Ning Li,Junyi Wang,Chanchan Wang,Renyi Wang,Tao Guo,Cai Yanjie,Chengzhang Liu,Haitao Xiang,Qiuxiang Shi,Huang Ping,Qingchun Chen,Yingrui Li,Jun Wang,Zhao Zhihai,Jian Wang +36 more
TL;DR: A draft genome anchored onto nine chromosomes and annotated 38,801 genes was produced and key chromosome reshuffling events were detected through collinearity identification between foxtail millet, rice and sorghum.
Journal ArticleDOI
Genomic landscapes of Chinese hamster ovary cell lines as revealed by the Cricetulus griseus draft genome
Nathan E. Lewis,Xin Liu,Yuxiang Li,Harish Nagarajan,George Yerganian,Edward J. O’Brien,Aarash Bordbar,Anne M Roth,Jeffrey Rosenbloom,Chao Bian,Min Xie,Wenbin Chen,Ning Li,Deniz Baycin-Hizal,Haythem Latif,Jochen Förster,Michael J. Betenbaugh,Iman Famili,Xun Xu,Jun Wang,Bernhard O. Palsson +20 more
TL;DR: This analysis identified hamster genes missing in different CHO cell lines, and detected >3.7 million single-nucleotide polymorphisms (SNPs), 551,240 indels and 7,063 copy number variations.
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