PXD033581

PXD033581 is an original dataset announced via ProteomeXchange.

Title	Chinese hamster ovary (CHO) cell Surfaceome LC-MSMS and mRNA expression analysis
Description	The production of biopharmaceuticals relies on robust cell systems that can produce recombinant proteins at high levels, and grow and survive in the stressful bioprocess environment. Chinese hamster ovary cells (CHO) as the main production hosts offer a variety of advantages including robust growth and survival in a bioprocess environment. Cell surface proteins are of special interest for the understanding of how CHO cells react to their environment while maintaining growth and survival phenotypes, since they enable cellular reactions to external stimuli and potentially initiate signaling pathways. To provide deeper insight into functions of this special cell surface sub-proteome, pathway enrichment analysis of the determined CHO surfaceome was conducted. Enrichment of growth/ survival pathways such as the phosphoinositide-3-kinase (PI3K/AKT), Mitogen-activated protein kinase (MAPK), Janus kinase/signal transducers and activators of transcription (JAK-STAT) and RAP1 pathways was observed, offering novel insights into how cell surface receptors and ligand mediated signaling enable the cells to grow and survive in a bioprocess environment. When supplementing surfaceome data with RNA expression data, several growth/ survival-receptors were shown to be co-expressed with their respective ligands and thus suggesting self-induction mechanisms, while other receptors or ligands were not detectable. As data about the presence of surface receptors and their associated expressed ligands may serve as base for future studies, further pathway characterization will enable the implementation of optimization strategies to further enhance cellular growth and survival behavior.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:30:08.903.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD033581
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jens Pfannstiel
SpeciesList	scientific name: Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus); NCBI TaxID: 10029;
ModificationList	biotinylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-04 09:07:49	ID requested
1	2022-10-14 21:44:15	announced
2	2023-11-14 07:20:33	announced	2023-11-14: Updated project metadata.
⏵ 3	2023-11-14 08:30:12	announced	2023-11-14: Updated project metadata.

Jerabek T, Klingler F, Raab N, Zeh N, Pfannstiel J, Otte K, Life at the periphery: what makes CHO cells survival talents. Appl Microbiol Biotechnol, 106(18):6157-6167(2022) [pubmed]

10.6019/PXD033581;

Klingler F, Mathias S, Schneider H, Buck T, Raab N, Zeh N, Shieh YW, Pfannstiel J, Otte K, Unveiling the CHO surfaceome: Identification of cell surface proteins reveals cell aggregation-relevant mechanisms. Biotechnol Bioeng, 118(8):3015-3028(2021) [pubmed]

submitter keyword: LC-MSMS, signaling pathways, mRNA expression,CHO cells, Surfaceome

Kerstin Otte
contact affiliation	Prof. Dr. Kerstin Otte Hochschule Biberach, University of Applied Sciences Molecular and Cell Biology Karlstraße 11 88400 Biberach Germany
contact email	otte@hochschule-bc.de
lab head
Jens Pfannstiel
contact affiliation	University of Hohenheim
contact email	Jens.Pfannstiel@uni-hohenheim.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/10/PXD033581

PRIDE project URI

• PRIDE
  1. PXD033581
     1. Label: PRIDE project
     2. Name: Chinese hamster ovary (CHO) cell Surfaceome LC-MSMS and mRNA expression analysis