PXD006580

PXD006580 is an original dataset announced via ProteomeXchange.

Title	Viral BONCAT: Detection of HPG incorporation into newly synthesized viral proteins via proteomics
Description	BONCAT was adapted and tested as a method for directly quantifying viral production in the ocean. To confirm the successful transfer of host-associated HPG-labeled proteins or peptides into marine viruses, we conducted an independent suite of proteomic experiments with cultured systems to directly assess the production of HPG-labeled viral proteins. We used including Emiliania huxleyi strain CCMP374 and its ~200nm coccolithovirus EhV207 as well as E. coli and its ~50 nm virus T7 as virus-host model systems. These specific model systems were chosen because they represent a range of viral particle sizes and their infection dynamics are well characterized. E. huxleyi/EhV207 also represents an ecologically relevant marine virus-host pair.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:38:11.112.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michael Sweredoski
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Enterobacteria phage T7; NCBI TaxID: 10760; scientific name: Emiliania huxleyi virus 207; NCBI TaxID: 181214; scientific name: Emiliania huxleyi; NCBI TaxID: 2903;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2017-05-24 05:09:42	ID requested
1	2017-11-27 01:50:22	announced
⏵ 2	2024-10-22 04:38:13	announced	2024-10-22: Updated project metadata.

Pasulka AL, Thamatrakoln K, Kopf SH, Guan Y, Poulos B, Moradian A, Sweredoski MJ, Hess S, Sullivan MB, Bidle KD, Orphan VJ, Interrogating marine virus-host interactions and elemental transfer with BONCAT and nanoSIMS-based methods. Environ Microbiol, 20(2):671-692(2018) [pubmed]

10.1111/1462-2920.13996;

curator keyword: Metaproteomics, Biological

submitter keyword: BONCAT,marine viruses, click chemistry, viral ecology

Victoria Orphan
contact affiliation	Division of Geological and Planetary Sciences, California Institute of Technology, USA
contact email	vorphan@gps.caltech.edu
lab head
Michael Sweredoski
contact affiliation	Proteome Exploration Laboratory
contact email	msweredo@caltech.edu
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/2017/11/PXD006580

PRIDE project URI

• PRIDE
  1. PXD006580
     1. Label: PRIDE project
     2. Name: Viral BONCAT: Detection of HPG incorporation into newly synthesized viral proteins via proteomics