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Title: Molecular Dynamics of the Shewanella oneidensis Response toChromate Stress

Abstract

Temporal genomic profiling and whole-cell proteomic analyseswere performed to characterize the dynamic molecular response of themetal-reducing bacterium Shewanella oneidensis MR-1 to an acute chromateshock. The complex dynamics of cellular processes demand the integrationof methodologies that describe biological systems at the levels ofregulation, gene and protein expression, and metabolite production.Genomic microarray analysis of the transcriptome dynamics ofmidexponential phase cells subjected to 1 mM potassium chromate (K2CrO4)at exposure time intervals of 5, 30, 60, and 90 min revealed 910 genesthat were differentially expressed at one or more time points. Stronglyinduced genes included those encoding components of a TonB1 irontransport system (tonB1-exbB1-exbD1), hemin ATP-binding cassettetransporters (hmuTUV), TonB-dependent receptors as well as sulfatetransporters (cysP, cysW-2, and cysA-2), and enzymes involved inassimilative sulfur metabolism (cysC, cysN, cysD, cysH, cysI, and cysJ).Transcript levels for genes with annotated functions in DNA repair (lexA,recX, recA, recN, dinP, and umuD), cellular detoxification (so1756,so3585, and so3586), and two-component signal transduction systems(so2426) were also significantly up-regulated (p<0.05) inCr(VI)-exposed cells relative to untreated cells. By contrast, genes withfunctions linked to energy metabolism, particularly electron transport(e.g. so0902-03-04, mtrA, omcA, and omcB), showed dramatic temporalalterations in expression with the majority exhibiting repression.Differential proteomics based on multidimensional HPLC-MS/MS was used tocomplement the transcriptome data, resultingmore » in comparable induction andrepression patterns for a subset of corresponding proteins. In total,expression of 2,370 proteins were confidently verified with 624 (26percent) of these annotated as hypothetical or conserved hypotheticalproteins. The initial response of S. oneidensis to chromate shock appearsto require a combination of different regulatory networks that involvegenes with annotated functions in oxidative stress protection,detoxification, protein stress protection, iron and sulfur acquisition,and SOS-controlled DNA repair mechanisms.« less

Authors:
; ; ; ; ; ; ;
Publication Date:
Research Org.:
COLLABORATION - ORNL
OSTI Identifier:
917309
Report Number(s):
LBNL-63441
R&D Project: VGTLTH; TRN: US200816%%505
DOE Contract Number:  
DE-AC02-05CH11231
Resource Type:
Journal Article
Journal Name:
Molecular and Cellular Proteomics
Additional Journal Information:
Journal Volume: 5; Related Information: Journal Publication Date: 03/08/2006
Country of Publication:
United States
Language:
English
Subject:
59; 54; CHROMATES; DETOXIFICATION; DNA REPAIR; ELECTRONS; ENZYMES; GENES; INDUCTION; IRON; METABOLISM; METABOLITES; PROTEINS; SULFATES; SULFUR; TRANSPORT; Environmental Genomics

Citation Formats

Brown, S D, Thompson, M R, VerBerkmoes, N C, Chourey, K, Shah, M, Zhou, J -Z, Hettich, R L, and Thompson, D K. Molecular Dynamics of the Shewanella oneidensis Response toChromate Stress. United States: N. p., 2007. Web.
Brown, S D, Thompson, M R, VerBerkmoes, N C, Chourey, K, Shah, M, Zhou, J -Z, Hettich, R L, & Thompson, D K. Molecular Dynamics of the Shewanella oneidensis Response toChromate Stress. United States.
Brown, S D, Thompson, M R, VerBerkmoes, N C, Chourey, K, Shah, M, Zhou, J -Z, Hettich, R L, and Thompson, D K. 2007. "Molecular Dynamics of the Shewanella oneidensis Response toChromate Stress". United States.
@article{osti_917309,
title = {Molecular Dynamics of the Shewanella oneidensis Response toChromate Stress},
author = {Brown, S D and Thompson, M R and VerBerkmoes, N C and Chourey, K and Shah, M and Zhou, J -Z and Hettich, R L and Thompson, D K},
abstractNote = {Temporal genomic profiling and whole-cell proteomic analyseswere performed to characterize the dynamic molecular response of themetal-reducing bacterium Shewanella oneidensis MR-1 to an acute chromateshock. The complex dynamics of cellular processes demand the integrationof methodologies that describe biological systems at the levels ofregulation, gene and protein expression, and metabolite production.Genomic microarray analysis of the transcriptome dynamics ofmidexponential phase cells subjected to 1 mM potassium chromate (K2CrO4)at exposure time intervals of 5, 30, 60, and 90 min revealed 910 genesthat were differentially expressed at one or more time points. Stronglyinduced genes included those encoding components of a TonB1 irontransport system (tonB1-exbB1-exbD1), hemin ATP-binding cassettetransporters (hmuTUV), TonB-dependent receptors as well as sulfatetransporters (cysP, cysW-2, and cysA-2), and enzymes involved inassimilative sulfur metabolism (cysC, cysN, cysD, cysH, cysI, and cysJ).Transcript levels for genes with annotated functions in DNA repair (lexA,recX, recA, recN, dinP, and umuD), cellular detoxification (so1756,so3585, and so3586), and two-component signal transduction systems(so2426) were also significantly up-regulated (p<0.05) inCr(VI)-exposed cells relative to untreated cells. By contrast, genes withfunctions linked to energy metabolism, particularly electron transport(e.g. so0902-03-04, mtrA, omcA, and omcB), showed dramatic temporalalterations in expression with the majority exhibiting repression.Differential proteomics based on multidimensional HPLC-MS/MS was used tocomplement the transcriptome data, resulting in comparable induction andrepression patterns for a subset of corresponding proteins. In total,expression of 2,370 proteins were confidently verified with 624 (26percent) of these annotated as hypothetical or conserved hypotheticalproteins. The initial response of S. oneidensis to chromate shock appearsto require a combination of different regulatory networks that involvegenes with annotated functions in oxidative stress protection,detoxification, protein stress protection, iron and sulfur acquisition,and SOS-controlled DNA repair mechanisms.},
doi = {},
url = {https://www.osti.gov/biblio/917309}, journal = {Molecular and Cellular Proteomics},
number = ,
volume = 5,
place = {United States},
year = {Fri Sep 21 00:00:00 EDT 2007},
month = {Fri Sep 21 00:00:00 EDT 2007}
}