PXD025659

PXD025659 is an original dataset announced via ProteomeXchange.

Title	Evaluation of different protein extraction protocols to study human gut microbiota.
Description	The link between the gut microbiota and the human physiological state has been demonstrated in recent years. High gut microbiota diversity has been linked to many beneficial functions necessary or human health, while dysbiosis has been correlated to different pathological states. In this context, the study of the gut microbiota results of high relevance been necessary the development of different techniques capable of characterizing this complex ecosystem. Metaproteomics has been proved useful in the characterization of complex protein samples becoming a suitable tool for the study of these microbial communities. However, due to the complexity of these samples, protein extraction protocols may affect metaproteomics results. In this context, we evaluated stool sample processing (SSP) and microbial cell disruption, assessing the impact of different protocol modifications in the number of peptides and proteins identified. We compared different stool processing conditions and microbial cell disruption methods in terms of protein and peptide identifications and taxonomic profiles.
HostingRepository	PRIDE
AnnounceDate	2021-07-06
AnnouncementXML	Submission_2022-01-24_08:11:45.228.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Concha Gil
SpeciesList	scientific name: Microbiota; NCBI TaxID: 13613; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-04-27 08:33:29	ID requested
1	2021-07-05 21:42:59	announced
⏵ 2	2022-01-24 08:11:46	announced	2022-01-24: Updated publication reference for PubMed record(s): 34290676.

Garc, í, a-Dur, á, n C, Mart, í, nez-L, ó, pez R, Zapico I, P, é, rez E, Romeu E, Arroyo J, Hern, á, ez ML, Pitarch A, Monteoliva L, Gil C, Distinct Human Gut Microbial Taxonomic Signatures Uncovered With Different Sample Processing and Microbial Cell Disruption Methods for Metaproteomic Analysis. Front Microbiol, 12():618566(2021) [pubmed]

ProteomeXchange project tag: Human Proteome Project

submitter keyword: microbiota, comparison, cell disruption, processing, metaproteomics, protein extraction

Concha Gil
contact affiliation	Departamento de Microbiología II, Facultad de Farmacia, Universidad Complutense de Madrid, Madrid, Spain
contact email	conchagil@ucm.es
lab head
Concha Gil
contact affiliation	UMC
contact email	cai.proteomica@pas.ucm.es
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/2021/07/PXD025659

PRIDE project URI

• PRIDE
  1. PXD025659
     1. Label: PRIDE project
     2. Name: Evaluation of different protein extraction protocols to study human gut microbiota.