PXD062367

PXD062367 is an original dataset announced via ProteomeXchange.

Title	Specimen Inactivation Methods for Proteomics – Comparisons of irradiation, chemical, and heat treatments on downstream serum analyses
Description	Numerous studies have described the efficacy of heat inactivation, gamma irradiation, or treatment with guanidium-based chaotropic salts (e.g. TRIzol®) for pathogen inactivation of biological samples to ensure biosafety and biosecurity. However, the effect of these methods on the greater serum proteome are less studied. Here we sought to comprehensively measure the effects of three routinely used pathogen inactivation methods on the serum proteome of Rhesus macaques by characterizing the serum proteome pre-and-post inactivation treatment. Using data independent aquisition-based shotgun LCMS/MS, we evaluated total peptide/protein detection and individual protein abundances (e.g. ALB, APOA1, and CRP) across inactivation methods and compared to their untreated controls. Specifically, we observed improved quantitative reproducibility in gamma-irradiated samples across biological, technical, and experimental replicates compared to chemical inactivation and different heat combinations. These findings represent the first direct, experimental comparisons of effective pathogen inactivation methods on the serologic profiles of non-human primates and provide useful criteria for evaluating methods for biological specimen inactivation prior to proteomic analysis.
HostingRepository	PRIDE
AnnounceDate	2025-10-13
AnnouncementXML	Submission_2025-10-12_17:40:57.626.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Brooke Genovese
SpeciesList	scientific name: Macaca mulatta (Rhesus macaque); NCBI TaxID: NEWT:9544;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-28 21:40:38	ID requested
⏵ 1	2025-10-12 17:40:58	announced

Genovese BN, Randhawa N, Grigorean G, Drazenovich T, Phinney BS, Van Rompay KKA, Yee J, Mazet JAK, Bird BH, Comparisons of Irradiation, Chemical, and Heat Treatments on Downstream Serum Analyses. J Proteome Res, 24(10):5282-5291(2025) [pubmed]

10.1021/acs.jproteome.5c00290;

submitter keyword: DIA, inactivation, gamma irradiation, rhesus,serum, trizol, primate

Brian Bird
contact affiliation	One Health Institute, University of California, Davis
contact email	bhbird@ucdavis.edu
lab head
Brooke Genovese
contact affiliation	Universiy of California, Davis - One Health Institute
contact email	brookegenovese94@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/2025/10/PXD062367

PRIDE project URI

• PRIDE
  1. PXD062367
     1. Label: PRIDE project
     2. Name: Specimen Inactivation Methods for Proteomics – Comparisons of irradiation, chemical, and heat treatments on downstream serum analyses