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Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq

ABSTRACT: Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq

PROVIDER: PRJNA590479 | ENA |

REPOSITORIES: ENA

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Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq II

Project description:Small-scale bioreactors used in Chinese hamster ovary (CHO) cell line development allow transcriptomic studies on multiple cell lines. Here we define the CHO cell long non-coding RNA (lncRNA) transcriptome from cells grown in controlled miniature bioreactors under fed-batch conditions using RNA-Seq to identify lncRNAs and how the expression of these changes throughout growth and between IgG producers. We identify lncRNAs associated with productivity and growth characteristics, finding that Adapt15, linked to ER stress, GAS5, linked to mTOR signalling/growth arrest, and PVT1, linked to Myc expression, are differentially regulated during fed-batch culture and whose expression relates to productivity and growth. Changes in (non)-coding RNA expression between the seed train and the equivalent day of fed-batch culture are also reported, showing large differences in gene expression between these, and compared with existing datasets. Collectively, we present a comprehensive lncRNA CHO cell profiling and identify targets for engineering growth and productivity characteristics of CHO cells.

2019-11-20 | GSE140669 | GEO

Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq I

2019-11-20 | GSE140668 | GEO

Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq II

Project description:Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq II

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Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq I

Project description:Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq I

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Defining lncRNAs Correlated with CHO Cell Growth and IgG Productivity by RNA-Seq.

Project description: Not available

| S-EPMC6971398 | biostudies-literature

Defining lncRNAs Associated with CHO Cell Growth and IgG Productivity by RNA-Seq

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-11-20 | GSE140671 | GEO

Secretory pathway differences between HEK293 and CHO enable rescue of difficult to express human proteins

Project description:Biologics have emerged as leading blockbuster therapeutics, but many advanced recombinant protein moieties remain difficult to produce. Here we identify bottlenecks limiting expression of challenging recombinant human proteins through a systems biology analysis of the transcriptomes of CHO and HEK293. Surprisingly, one third of the challenging human proteins displayed an improved secretion upon host cell swapping from CHO to HEK293. While most components of the secretory machinery showed comparable expression levels in both expression hosts, a key set of genes with extreme expression variation was identified. Among these, ATF4 and SRP9 were validated as general productivity boosters in CHO. Further, we found that more heavily glycosylated products benefit more from the elevated activities of the N- and O-glycosyltransferases found in HEK293 cells. Collectively, our results demonstrate the utilization of HEK293 cells for expression rescue of human proteins and suggest a strategy for identification of secretory pathway components improving yield and quality in HEK293 and CHO.

2022-06-22 | GSE157729 | GEO

RNA-seq of miRNA and piRNA of Exosomes and whole cell lysates from CHO-K1 Cell Cultures at different growth phases

Project description:In biopharmaceutical production, Chinese hamster ovary (CHO) cells derived from Cricetulus griseus remain the most commonly used host cell for recombinant protein production, especially antibodies. Over the last decade in-depth multi-omics characterization of these CHO cells provided data for extensive cell line engineering and corresponding increases in productivity. exosomes, extracellular vesicles containing proteins and nucleic acids, are barely researched at all in CHO cells. Exosomes have been proven to be an ubiquitous mediator of intercellular communication and are proposed as new biopharmaceutical format for drug delivery, indicator reflecting host cell condition and anti-apoptotic factor in spent media. Here we sequenced non-coding RNA of Exosomes (EXO) and whole cell lysate (WCL) isolated from CHO-K1 Cell Cultures at different growth phases (logarithmic/exponential phase (log/exp), stationary phase (stat), as well as death phase at 80 % viability (80 % ) and 60 % viability (60 %)) via Lexogen Small RNA-Seq Library Prep Kit for Illumina on the Illumina MiSeq platform in PE mode 2 x 36nt.

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CHO-S transcriptome in batch culture

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