Utilization of a detergent-based method for direct microbial cellular lysis/proteome extraction from soil samples for metaproteomics studies

Karuna Chourey, Robert L. Hettich

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

5 Scopus citations

Abstract

Soil metaproteomics is a rapidly developing and rather complex field aimed at understanding the functionalities of soil microbial communities. One of the main challenges of such an approach is the availability of a robust and efficient protocol to extract proteins from soil microbes inhabiting this complex matrix. The wide range of soil types and the innumerable variations in soil properties confound this experimental goal. Here we present a detergent based, heat-assisted cellular lysis method coupled with trichloroacetic acid (TCA) precipitation of soil microbial proteins that has been developed in our lab and found to be reasonably robust and unbiased in extracting microbial proteins from a broad range of soils for downstream mass spectrometric characterizations of microbial metabolic activities in natural ecosystems.

Original languageEnglish
Title of host publicationMethods in Molecular Biology
PublisherHumana Press Inc.
Pages293-302
Number of pages10
DOIs
StatePublished - 2018

Publication series

NameMethods in Molecular Biology
Volume1841
ISSN (Print)1064-3745

Funding

Karuna Chourey and Robert L. Hettich acknowledge funding support from US Department of Energy, Genome Sciences Program. Oak Ridge National Laboratory is managed by UT-Battelle, LLC, for the US Department of Energy.

FundersFunder number
U.S. Department of Energy
Oak Ridge National Laboratory

    Keywords

    • Biological mass spectrometry
    • Cell lysis
    • Metaproteomics
    • Protein extraction
    • Soil protein extraction
    • Soil proteomics

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