PXD042916

PXD042916 is an original dataset announced via ProteomeXchange.

Title	Bacterial growth-mediated systems remodeling of Nicotiana benthamiana defines unique signatures modulating target protein production in molecular pharming
Description	The need for therapeutics to treat a plethora of medical conditions and diseases is on the rise and the demand for alternative approaches to mammalian-based production systems is increasing. Plant-based strategies provide a safe and effective alternative to produce biological drugs but have yet to enter mainstream manufacturing at a competitive level. Limitations associated with batch consistency and target protein production levels are present; however, strategies to overcome these challenges are underway. In this study, we apply state-of-the-art mass spectrometry-based proteomics to define proteome remodeling of the plant following agroinfiltration with bacteria grown under shake flask or bioreactor conditions. We observed distinct signatures of bacterial protein production corresponding to the different growth conditions that directly influence the plant defense responses and target protein production on a temporal axis. Our integration of proteomic profiling with small molecule detection and quantification reveals the fluctuation of secondary metabolite production over time to provide new insight into the complexities of dual system modulation in molecular pharming. Our findings suggest that bioreactor bacterial growth may promote evasion of early plant defense responses towards A. tumefaciens. Further we uncover specific targets for genetic manipulation to suppress host defenses and increase recombinant protein production in molecular pharming.
HostingRepository	PRIDE
AnnounceDate	2024-03-20
AnnouncementXML	Submission_2024-03-19_17:44:40.306.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nicholas Prudhomme
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Nicotiana benthamiana; NCBI TaxID: 4100; scientific name: Rhizobium radiobacter (Agrobacterium tumefaciens) (Agrobacterium radiobacter); NCBI TaxID: 358;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-06-12 11:37:13	ID requested
⏵ 1	2024-03-19 17:44:40	announced

10.1111/PBI.14342.;

submitter keyword: proteomics, metabolomics, Agrobacterium tumefaciens, defense response, bioreactor, shake flask, systems biology, antibodies, Nicotiana benthamiana,Molecular pharming

Jennifer Geddes-McAlister
contact affiliation	University of Guelph
contact email	jgeddesm@uoguelph.ca
lab head
Nicholas Prudhomme
contact affiliation	University of Guelph
contact email	nprudhom@uoguelph.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD042916
     1. Label: PRIDE project
     2. Name: Bacterial growth-mediated systems remodeling of Nicotiana benthamiana defines unique signatures modulating target protein production in molecular pharming