PXD050495

PXD050495 is an original dataset announced via ProteomeXchange.

Title	Proteomics and metabolic burden analysis to understand the impact of recombinant protein production on host cells
Description	Recombinant protein production (RPP) using Escherichia coli as an expression host is highly efficient, however, it also in¬ leads to strong host cell metabolic burden. Energy and biomass precursors are withdrawn from the host’s metabolism as they are required for plasmid replication, heterologous gene expression and protein production. In this study, we aim to investigate the effect of early and growth phase induction point on RPP. We have analysed and compared the proteomics data for growth-and protein production-phase to understand the cellular dynamics and recombinant protein-dependent product formation in process with respect to the two different hosts (M15 and DH5⍺) and medium (minimal and complex) cultures. Differential gene analysis shows that significant changes in carbohydrate metabolism, transport metabolism, nucleotide metabolism, amino acid metabolism and energy metabolism. Comprehension of the obtain results suggest that growth inhibition does not showing effect on recombinant protein and product yield but there is an changes in intracellular nucleobases, translation, transcription and cellular metabolism which leads to the degradation and instability during product formation. Overall, deeper knowledge of the cellular behaviour during recombinant protein production can be used to better exploit omics data with the goal of rational strain development.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:34:21.598.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD050495
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Girish Halemirle Rajacharya
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-09 08:54:18	ID requested
1	2024-03-23 06:21:16	announced
⏵ 2	2024-10-22 06:34:22	announced	2024-10-22: Updated project metadata.

10.6019/PXD050495;

submitter keyword: recombinant protein production, 39proteomics, metabolic burden, gene expression, acyl-(acyl carrier protein) reductase (AAR), post-induction growth phases

Syed Shams Yazdani
contact affiliation	Microbial Engineering Group, ICGEB, India
contact email	shams@icgeb.res.in
lab head
Girish Halemirle Rajacharya
contact affiliation	Indian Institute of Technology, Delhi
contact email	hr.girish014@gmail.com
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/2024/03/PXD050495

PRIDE project URI

• PRIDE
  1. PXD050495
     1. Label: PRIDE project
     2. Name: Proteomics and metabolic burden analysis to understand the impact of recombinant protein production on host cells