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Revealing suspension adapation of CHO cell in serum free media

ABSTRACT: Purpose : We performed strand-specific RNA-seq analysis of CHO cells according to adaptation trajectory to identify the specific genes responded to the suspension adaptation. Result : Cell growth, replication, and nucleotide metabolism categories were enriched in up regulated clusters whereas cellular community category which contains focal adhesion related genes were enriched in down regulated clusters

ORGANISM(S): Cricetulus griseus

PROVIDER: GSE75094 | GEO | 2015/11/19

SECONDARY ACCESSION(S): PRJNA302601

REPOSITORIES: GEO

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Revealing suspension adapation of CHO cell in serum free media

Project description:Purpose : We performed strand-specific RNA-seq analysis of CHO cells according to adaptation trajectory to identify the specific genes responded to the suspension adaptation. Result : Cell growth, replication, and nucleotide metabolism categories were enriched in up regulated clusters whereas cellular community category which contains focal adhesion related genes were enriched in down regulated clusters CHO-K1 mRNA profiles during suspension adaptation generated by RNA sequencing, in duplicate, using Illumina MiSeq.

2015-11-19 | E-GEOD-75094 | biostudies-arrayexpress

CHO cells: Serum free adapted cells (Control) vs. Serum adapted cells

Project description:Transcriptional profiling of CHO-K1 cells comparing to in-house serum-free and suspension adapted CHO-K1 cells in the exponential phase. Goal was to determine the effects of serum on CHO-K1 cells.

2016-12-24 | GSE92885 | GEO

Comparison of transcriptional profile of CHO cells cultured in different media.

Project description:Two clones of Chinese hamster ovary (CHO) cells were cultured in 2 different chemical difined custom media. Transcriptional profile were compeared between clones and media.

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High technical resolution transcriptomics analysis for CHO cells

Project description:The development of next-generation sequencing technologies has opened new opportunities to better characterize complex eukaryotic cells. Chinese hamster ovary (CHO) cells play a primary role in therapeutic protein production, with currently five of the top ten blockbuster selling drugs produced in CHO. However, engineering superior CHO cells with improved production features has had limited results to date and cell lines are still developed through generation and screening of large strain pools. Here, we applied RNA sequencing to contrast a high and a low monoclonal antibody producing cell line. Rigorous experimental design achieved high reproducibility between biological replicates, remarkably reducing variation to less than 10%. More than 14,000 gene-transcripts were identified and surprisingly 58% were classified as differentially expressed, including 2,900 with a fold change higher than 1.5. The largest differences were found for gene-transcripts belonging to regulation of apoptosis, cell death and protein intracellular transport GO term classifications, which were found to be significantly enriched in the high producing cell line. RNA sequencing was also performed to lower producing subclones, where down-regulation of genes encoding secreted glycoproteins was found to be the most significant change. The large number of significant differences even between subclones suggests a substantial genetic fluidity in CHO lines and challenges the notion of identifying and manipulating a few key genes to generate high production CHO cell lines.

2018-02-12 | GSE100908 | GEO

CHO-S transcriptome in batch culture

Project description:Transcriptomic data from CHO-S cells were gathered from multiple time points during batch culture to provide information about gene presence/absence for generation of a CHO-S cell line specific model using the GIMME algorithm.

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Cricetulus griseus strain:CHO

Project description:CHO-DG44

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The microRNomes of Chinese Hamster Ovary (CHO) cells and their extracellular vesicles, and how they respond to osmotic and ammonia stress

Project description:A new area of focus in Chinese Hamster Ovary (CHO) biotechnology is the role of small (exosomes) and large (microvesicles or microparticles) extracellular vesicles (EVs). CHO cells in culture exchange large quantities of proteins and RNA through these EVs, yet the content and role of these EVs remain elusive. MicroRNAs (miRs) are central to adaptive responses to stress and more broadly to changes in culture conditions. Given that EVs are highly enriched in miRs, and that EVs release large quantities of miRs both in vivo and in vitro, EVs and their miR content likely play an important role in adaptive responses. Here we report the miRNA landscape of CHO cells and their EVs under normal culture conditions and under ammonia and osmotic stress. We show that both cells and EVs are highly enriched in five miRs (among over 600 miRs) that make up about half of their total miR content, and that these highly enriched miRs differ significantly between normal and stress culture conditions. Notable is the high enrichment in mir-92a and miR-23a under normal culture conditions, in contrast to the high enrichment in let-7 family miRs (let-7c, let-7b and let-7a) under both stress conditions. The latter suggests a preserved stress-responsive function of the let-7 miR family, one of the most highly preserved miR families across species, where among other functions, let-7 miRs regulate core oncogenes, which, depending on the biological context, may tip the balance between cell cycle arrest and apoptosis. While the expected –based on their profound enrichment – important role of these highly enriched miRs remains to be dissected, our data and analysis constitute an important resource for exploring the role of miRs in cell adaptation as well as for synthetic applications.

2023-01-18 | GSE222228 | GEO

Cricetulus griseus strain:CHO-K1

Project description:CHO cells

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Identification of microRNAs specific for high producer CHO cell lines

Project description:Mature microRNA levels were analyzed in 4 producing CHO cell lines expressing 2 structurally different recombinant proteins at low and high level as well as in 1 non-producing CHO cell line. The goal was to identify microRNAs that are involved in heterologous protein formation and secretion. 5 recombinant CHO cell lines. 3 biological replicates each. All samples were hybridized against a common reference (pool of all total RNA samples).

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RNA-sequencing analysis of a wildtype CHO cell line (CHO-K1), a mutant CHO cell line (pgsA745) that lacks xylosyltransferase (XylT) activity, and pgsA745 stably transfected with XylT1 (pgsA745-XylT1).

Project description:We report a a large deletion in the gene encoding for laminin subunit α2 (Lama2) in CHO pgsA745.

2016-11-20 | GSE75521 | GEO