PXD034259

PXD034259 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis of bacterial extracellular vesicles enriched by ultracentrifugation and an ε-Poly- L-lysine-based method
Description	Both Gram-negative and Gram-positive bacteria can release vesicle-like structures referred as bacterial extracellular vesicles (BEVs), which contain various bioactive compounds. BEVs play important roles in the microbial community interactions and host-microbe interactions. Markedly, BEVs can be delivered to host cell, thus modulating the development and function of the innate immune system. To clarify the compositions and biological functions of BEVs, these vesicles need to be collected with high purity and bioactivity. Here we propose an isolation strategy based on a broad-spectrum antimicrobial epsilon-poly-L–lysine (ε-PL) to precipitate BEVs at a relatively low centrifugal speed (10,000 × g). Compared to the standard ultracentrifugation strategy, our method can enrich BEVs from large volumes of media inexpensively and rapidly. The precipitated BEVs can be recovered by adjusting pH and ionic strength of the media, followed by ultrafiltration step to remove ε-PL and achieve buffer exchange. Protein compositions of the BEVs enriched by ultracentrifugation and ε-PL-based method are measured using LC-MS/MS. The resultant data indicate that protein compositions of the ε-PL-precipitated BEVs are comparable to those purified by ultracentrifugation.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:57:04.182.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shujin Wei
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Staphylococcus aureus; NCBI TaxID: 1280;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-01 11:21:47	ID requested
1	2022-08-02 20:01:58	announced
⏵ 2	2023-11-14 08:57:04	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: bacterial culture media,Escherichia coli, Staphylococcus aureus

Wanli Xing
contact affiliation	School of Medicine, Tsinghua University, China
contact email	wlxing@tsinghua.edu.cn
lab head
Shujin Wei
contact affiliation	Tsinghua University
contact email	weisj18@mails.tsinghua.edu.cn
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/2022/08/PXD034259

PRIDE project URI

• PRIDE
  1. PXD034259
     1. Label: PRIDE project
     2. Name: Proteomic analysis of bacterial extracellular vesicles enriched by ultracentrifugation and an ε-Poly- L-lysine-based method