The identification of global patterns and unique signatures of proteins across 14 environments using outer membrane proteomics of bacteria.

Schliep, M; Ryall, B; Ferenci, T

The identification of global patterns and unique signatures of proteins across 14 environments using outer membrane proteomics of bacteria.

Schliep, M Ryall, B Ferenci, T

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Publication Type:: Journal Article
Citation:: Mol Biosyst, 2012, 8 (11), pp. 3017 - 3027
Issue Date:: 2012-11

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Field	Value	Language
dc.contributor.author	Schliep, M	en_US
dc.contributor.author	Ryall, B	en_US
dc.contributor.author	Ferenci, T	en_US
dc.date.issued	2012-11	en_US
dc.identifier.citation	Mol Biosyst, 2012, 8 (11), pp. 3017 - 3027	en_US
dc.identifier.uri	http://hdl.handle.net/10453/31511
dc.description.abstract	We test the hypothesis that organisms sourced from different environments exhibit unique fingerprints in macromolecular composition. Experimentally, we followed proteomic changes with 14 different sub-lethal environmental stimuli in Escherichia coli at controlled growth rates. The focus was on the outer membrane sub-proteome, which is known to be extremely sensitive to environmental controls. The analyses surprisingly revealed that pairs of proteins belonging to very different regulons, such as Slp and OmpX or FadL and OmpF, have the closest patterns of change with the 14 conditions. Fe-limited and cold-cultured bacteria have the most distinct global patterns of spot changes, but the patterns with fast growth and oxygen limitation are the closest amongst the 14 environments. These unexpected but statistically robust results suggest that we have an incomplete picture of bacterial regulation across different stress responses; baseline choices and growth-rate influences are probably underestimated factors in such systems-level analysis. In terms of our aim of getting a unique profile for each of the 14 investigated environments, we find that it is unnecessary to compare all the proteins in a proteome and that a panel of five proteins is sufficient for identification of environmental fingerprints. This demonstrates the future feasibility of tracing the history of contaminating bacteria in hospitals, foods or industrial settings as well as for released organisms and biosecurity purposes.	en_US
dc.language	eng	en_US
dc.relation.ispartof	Mol Biosyst	en_US
dc.relation.isbasedon	10.1039/c2mb25212k	en_US
dc.subject.classification	Biochemistry & Molecular Biology	en_US
dc.subject.mesh	Escherichia coli	en_US
dc.subject.mesh	Bacterial Proteins	en_US
dc.subject.mesh	Bacterial Outer Membrane Proteins	en_US
dc.subject.mesh	Proteome	en_US
dc.subject.mesh	Electrophoresis, Gel, Two-Dimensional	en_US
dc.subject.mesh	Proteomics	en_US
dc.subject.mesh	Gene Expression Regulation, Bacterial	en_US
dc.title	The identification of global patterns and unique signatures of proteins across 14 environments using outer membrane proteomics of bacteria.	en_US
dc.type	Journal Article
utslib.citation.volume	11	en_US
utslib.citation.volume	8	en_US
utslib.location.activity	England	en_US
utslib.for	0601 Biochemistry and Cell Biology	en_US
pubs.embargo.period	Not known	en_US
pubs.organisational-group	/University of Technology Sydney
pubs.organisational-group	/University of Technology Sydney/Faculty of Science
utslib.copyright.status	closed_access
pubs.issue	11	en_US
pubs.publication-status	Published	en_US
pubs.volume	8	en_US

Abstract:

We test the hypothesis that organisms sourced from different environments exhibit unique fingerprints in macromolecular composition. Experimentally, we followed proteomic changes with 14 different sub-lethal environmental stimuli in Escherichia coli at controlled growth rates. The focus was on the outer membrane sub-proteome, which is known to be extremely sensitive to environmental controls. The analyses surprisingly revealed that pairs of proteins belonging to very different regulons, such as Slp and OmpX or FadL and OmpF, have the closest patterns of change with the 14 conditions. Fe-limited and cold-cultured bacteria have the most distinct global patterns of spot changes, but the patterns with fast growth and oxygen limitation are the closest amongst the 14 environments. These unexpected but statistically robust results suggest that we have an incomplete picture of bacterial regulation across different stress responses; baseline choices and growth-rate influences are probably underestimated factors in such systems-level analysis. In terms of our aim of getting a unique profile for each of the 14 investigated environments, we find that it is unnecessary to compare all the proteins in a proteome and that a panel of five proteins is sufficient for identification of environmental fingerprints. This demonstrates the future feasibility of tracing the history of contaminating bacteria in hospitals, foods or industrial settings as well as for released organisms and biosecurity purposes.

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http://hdl.handle.net/10453/31511