Increasing taxonomic and functional characterization of host-microbiome interactions by DIA-PASEF metaproteomics.

ABSTRACT:

Introduction

Metaproteomics is a rapidly advancing field that offers unique insights into the taxonomic composition and the functional activity of microbial communities, and their effects on host physiology. Classically, data-dependent acquisition (DDA) mass spectrometry (MS) has been applied for peptide identification and quantification in metaproteomics. However, DDA-MS exhibits well-known limitations in terms of depth, sensitivity, and reproducibility. Consequently, methodological improvements are required to better characterize the protein landscape of microbiomes and their interactions with the host.

Methods

We present an optimized proteomic workflow that utilizes the information captured by Parallel Accumulation-Serial Fragmentation (PASEF) MS for comprehensive metapro

SUBMITTER: Gomez-Varela D 

PROVIDER: S-EPMC10613666 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature