Dataset Information

ChipFilter: Microfluidic Based Comprehensive Sample Preparation Methodology for Metaproteomics

ABSTRACT: 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.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Escherichia Coli Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Yann Verdier

LAB HEAD: Joelle Vinh

PROVIDER: PXD039581 | Pride | 2024-05-24

REPOSITORIES: Pride

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ChipFilter: Microfluidic-Based Comprehensive Sample Preparation Methodology for Microbial Consortia.

Ravi Kumar Ranjith Kumar RK Ndiaye Massamba Mbacke MM Haddad Iman I Vinh Joelle J Verdier Yann Y

Journal of proteome research 20240214 3

The metaproteomic approach is an attractive way to describe a microbiome at the functional level, allowing the identification and quantification of proteins across a broad dynamic range as well as the detection of post-translational modifications. However, it remains relatively underutilized, mainly due to technical challenges that should be addressed, including the complexity of extracting proteins from heterogeneous microbial communities. Here, we show that a ChipFilter microfluidic device cou ...[more]

PMID: 38353246

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			Action	DRS
	10E2.msf	Msf
	10E6.msf	Msf
	Bsub_thesis_.msf	Msf
	Ecoli_thesis.msf	Msf
	Faeces.msf	Msf