Evaluation of protein extraction methodologies on bacterial proteomic profiling: a comparative analysis.

ABSTRACT: Bacterial proteomics is a pivotal tool for elucidating microbial physiology and pathogenicity. The efficiency and reliability of proteomic analyses are highly dependent on the protein extraction methodology, which directly influences the detectable proteome. In this study, we systematically compared four protein extraction protocols-SDT lysis buffer with boiling (SDT-B), SDT lysis buffer with ultrasonication (SDT-U/S), a combination of boiling and ultrasonication (SDT-B-U/S), and SDT lysis buffer with liquid nitrogen grinding followed by ultrasonication (SDT-LNG-U/S)-to evaluate their effects on peptide and protein identification, distribution, and reproducibility in Escherichia coli and Staphylococcus aureus. Both data-dependent acquisition (DDA) and data-independent acquisi

SUBMITTER: Jiang H 

PROVIDER: S-EPMC12312612 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature