PXD012031-1

PXD012031 is an original dataset announced via ProteomeXchange.

Title	Intestinal crypt cells and the microbiome undergo abrupt reprogramming at the onset of colonic infection
Description	We used the mouse pathogen Citrobacter rodentium to model gut infections. Following oral inoculation C. rodentium resides in the caecum for the first 3 days, before it infects the colon on the 4th day. Here we show that while the host is unresponsive to the infection on day 3, there is an abrupt reprogramming of the cellular composition of the crypt, involving depletion of goblet and deep crypt secretory cells, as well as metabolism (e.g. simultaneous up-regulation of cholesterol biogenesis, import and efflux), DNA damage repair and proliferation, which correlated with Ki67 staining, on day 4. Reduction in the abundance of proteins involved in the TCA cycle and oxidative phosphorylation, leading to oxygenation of the gut, coincided with instant expansion of mucosal-associated Enterobacteriaceae. These results show that sensing a small number of pathogenic bacteria triggers immediate intrinsic changes to the epithelium physiology and the microbiota, which parallel innate gut immune responses.
HostingRepository	PRIDE
AnnounceDate	2019-03-05
AnnouncementXML	Submission_2019-03-05_02:12:57.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	James Wright
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Citrobacter rodentium; NCBI TaxID: 67825;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2018-12-12 06:25:09	ID requested
⏵ 1	2019-03-05 02:12:58	announced
2	2019-04-10 05:44:34	announced	Updated publication reference for PubMed record(s): 30940698.
3	2024-10-22 03:58:59	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Mouse, Colon, Infection, citrobacter, tmt,

Jyoti Choudhary
contact affiliation	Institute of Cancer Research
contact email	jyoti.choudhary@icr.ac.uk
lab head
James Wright
contact affiliation	Functional Proteomics, Institute Cancer Research & Proteomic Mass Spectrometry, Wellcome Trust Sanger Institute
contact email	jw13@sanger.ac.uk
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/2019/03/PXD012031

PRIDE project URI

• PRIDE
  1. PXD012031
     1. Label: PRIDE project
     2. Name: Intestinal crypt cells and the microbiome undergo abrupt reprogramming at the onset of colonic infection