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

Karuna Chourey; Robert L. Hettich

doi:10.1007/978-1-4939-8695-8_20

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

Karuna Chourey, Robert L. Hettich

Bioanalytical Mass Spectrometry

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-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 language	English
Title of host publication	Methods in Molecular Biology
Publisher	Humana Press Inc.
Pages	293-302
Number of pages	10
DOIs	https://doi.org/10.1007/978-1-4939-8695-8_20
State	Published - 2018

Publication series

Name	Methods in Molecular Biology
Volume	1841
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.

Keywords

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

Access to Document

10.1007/978-1-4939-8695-8_20

Cite this

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

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.",

keywords = "Biological mass spectrometry, Cell lysis, Metaproteomics, Protein extraction, Soil protein extraction, Soil proteomics",

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Utilization of a detergent-based method for direct microbial cellular lysis/proteome extraction from soil samples for metaproteomics studies. / Chourey, Karuna; Hettich, Robert L.
Methods in Molecular Biology. Humana Press Inc., 2018. p. 293-302 (Methods in Molecular Biology; Vol. 1841).

Research output: Chapter in Book/Report/Conference proceeding › Chapter › peer-review

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

Abstract

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Keywords

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