PXD039581 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | ChipFilter: Microfluidic Based Comprehensive Sample Preparation Methodology for Metaproteomics |
Description | Here, we show that a ChipFilter microfluidic device coupled to LC-MS/MS can successfully be used for identification of microbial proteins. Using cultures of E. coli, B. subtilis and S. cerevisiae, we have shown that it is possible to directly lyse the cells and digest the proteins in the ChipFilter to allow higher number of proteins and peptides identification than standard protocols, even at low cell density. The peptides produced are overall longer after ChipFilter digestion but show no change in their degree of hydrophobicity. Analysis of a more complex mixture of 17 species from the gut microbiome showed that the ChipFilter preparation was able to identify and estimate the amount of 16 of these species. |
HostingRepository | PRIDE |
AnnounceDate | 2024-05-24 |
AnnouncementXML | Submission_2024-05-24_02:43:03.926.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Yann Verdier |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932; |
ModificationList | monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-01-20 02:40:14 | ID requested | |
⏵ 1 | 2024-05-24 02:43:04 | announced | |
Publication List
10.1021/acs.jproteome.3c00288; |
Ravi Kumar RK, Ndiaye MM, Haddad I, Vinh J, Verdier Y, ChipFilter: Microfluidic-Based Comprehensive Sample Preparation Methodology for Microbial Consortia. J Proteome Res, 23(3):869-880(2024) [pubmed] |
Keyword List
submitter keyword: metaproteomic |
sample preparation |
Contact List
Joelle Vinh |
contact affiliation | Spectrométrie de Masse Biologique et Protéomique, LPC, UMR ESPCI CNRS 8249 ; 10 rue Vauquelin F-75005 Paris, France |
contact email | joelle.vinh@espci.fr |
lab head | |
Yann Verdier |
contact affiliation | SMBP |
contact email | yann.verdier@espci.fr |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD039581
- Label: PRIDE project
- Name: ChipFilter: Microfluidic Based Comprehensive Sample Preparation Methodology for Metaproteomics