PXD039416

PXD039416 is an original dataset announced via ProteomeXchange.

Title	Ex vivo proteomics of Mycobacterium marinum
Description	Proteins expressed and exported out of the mycobacterial biofilm cells into granulomatous environment during infection were identified by LC-MS/MS. To this end, adult 5- to 10-month-old female AB wild-type zebrafish (Danio rerio) were infected with 4-day old M. marinum ATCC927 (carrying the pTEC27 plasmid expressing the tdTomato fluorescent protein) cells. After 8 weeks post infection, ten zebrafish were euthanized, and red fluorescent mycobacterial granulomas were carefully dissected from the zebrafish ovaries. Ten granulomas were collected per tube, frozen on dry ice and stored at -80 °C until preparation for proteomics. Altogether, ten replicate samples, each with ten mycobacterial granulomas, were subjected to protein extraction and LC-MS/MS identification.
HostingRepository	PRIDE
AnnounceDate	2023-03-06
AnnouncementXML	Submission_2023-03-06_03:47:23.283.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	TuulaNyman
SpeciesList	scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF fleX

Revision	Datetime	Status	ChangeLog Entry
0	2023-01-13 06:49:17	ID requested
⏵ 1	2023-03-06 03:47:23	announced

Dataset with its publication pending

submitter keyword: PACM sample preparation, MaxQuant, LC-MS/MS identification, mycobacterial surface and secreted proteins

TuulaNyman
contact affiliation	Head of Proteomics
contact email	tuula.nyman@medisin.uio.no
lab head
TuulaNyman
contact affiliation	University of Oslo
contact email	tuula.nyman@medisin.uio.no
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/2023/03/PXD039416

PRIDE project URI

• PRIDE
  1. PXD039416
     1. Label: PRIDE project
     2. Name: Ex vivo proteomics of Mycobacterium marinum