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Title: Transcriptome Profiling of Shewanella oneidensis Gene Expressionfollowing Exposure to Acidic and Alkaline pH

Abstract

The molecular response of Shewanella oneidensis MR-1 tovariations in extracellular pH was investigated based on genomewide geneexpression profiling. Microarray analysis revealed that cells elicitedboth general and specific transcriptome responses when challenged withenvironmental acid (pH 4) or base (pH 10) conditions over a 60-minperiod. Global responses included the differential expression of genesfunctionally linked to amino acid metabolism, transcriptional regulationand signal transduction, transport, cell membrane structure, andoxidative stress protection. Response to acid stress included theelevated expression of genes encoding glycogen biosynthetic enzymes,phosphate transporters, and the RNA polymerase sigma-38 factor (rpoS),whereas the molecular response to alkaline pH was characterized byupregulation of nhaA and nhaR, which are predicted to encode an Na+/H+antiporter and transcriptional activator, respectively, as well assulfate transport and sulfur metabolism genes. Collectively, theseresults suggest that S. oneidensis modulates multiple transporters, cellenvelope components, and pathways of amino acid consumption and centralintermediary metabolism as part of its transcriptome response to changingexternal pH conditions.

Authors:
; ; ; ; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
Ernest Orlando Lawrence Berkeley NationalLaboratory, Berkeley, CA (US)
Sponsoring Org.:
USDOE Director. Office of Science. Office of AdvancedScientific Computing Research. Office of Biological and EnvironmentalResearch
OSTI Identifier:
903367
Report Number(s):
LBNL-60456
Journal ID: ISSN 0021-9193; JOBAAY; R&D Project: VGTLAA; BnR: KP1102010; TRN: US200720%%299
DOE Contract Number:  
DE-AC02-05CH11231
Resource Type:
Journal Article
Resource Relation:
Journal Name: Journal of Bacteriology; Journal Volume: 188; Journal Issue: 4; Related Information: Journal Publication Date: February,2006
Country of Publication:
United States
Language:
English
Subject:
59; 54; AMINO ACIDS; CELL MEMBRANES; ENZYMES; GENES; GLYCOGEN; METABOLISM; PHOSPHATES; REGULATIONS; RNA POLYMERASES; SULFATES; SULFUR; TRANSPORT; transcriptomics microarrays

Citation Formats

Leaphart, Adam B., Thompson, Dorothea K., Huang, Katherine, Alm,Eric, Wan, Xiu-Feng, Arkin, Adam P., Brown, Steven D., Wu, Liyou, Yan,Tingfen, Liu, Xueduan, Wickham, Gene S., and Zhou, Jizhong. Transcriptome Profiling of Shewanella oneidensis Gene Expressionfollowing Exposure to Acidic and Alkaline pH. United States: N. p., 2007. Web.
Leaphart, Adam B., Thompson, Dorothea K., Huang, Katherine, Alm,Eric, Wan, Xiu-Feng, Arkin, Adam P., Brown, Steven D., Wu, Liyou, Yan,Tingfen, Liu, Xueduan, Wickham, Gene S., & Zhou, Jizhong. Transcriptome Profiling of Shewanella oneidensis Gene Expressionfollowing Exposure to Acidic and Alkaline pH. United States.
Leaphart, Adam B., Thompson, Dorothea K., Huang, Katherine, Alm,Eric, Wan, Xiu-Feng, Arkin, Adam P., Brown, Steven D., Wu, Liyou, Yan,Tingfen, Liu, Xueduan, Wickham, Gene S., and Zhou, Jizhong. Mon . "Transcriptome Profiling of Shewanella oneidensis Gene Expressionfollowing Exposure to Acidic and Alkaline pH". United States. doi:.
@article{osti_903367,
title = {Transcriptome Profiling of Shewanella oneidensis Gene Expressionfollowing Exposure to Acidic and Alkaline pH},
author = {Leaphart, Adam B. and Thompson, Dorothea K. and Huang, Katherine and Alm,Eric and Wan, Xiu-Feng and Arkin, Adam P. and Brown, Steven D. and Wu, Liyou and Yan,Tingfen and Liu, Xueduan and Wickham, Gene S. and Zhou, Jizhong},
abstractNote = {The molecular response of Shewanella oneidensis MR-1 tovariations in extracellular pH was investigated based on genomewide geneexpression profiling. Microarray analysis revealed that cells elicitedboth general and specific transcriptome responses when challenged withenvironmental acid (pH 4) or base (pH 10) conditions over a 60-minperiod. Global responses included the differential expression of genesfunctionally linked to amino acid metabolism, transcriptional regulationand signal transduction, transport, cell membrane structure, andoxidative stress protection. Response to acid stress included theelevated expression of genes encoding glycogen biosynthetic enzymes,phosphate transporters, and the RNA polymerase sigma-38 factor (rpoS),whereas the molecular response to alkaline pH was characterized byupregulation of nhaA and nhaR, which are predicted to encode an Na+/H+antiporter and transcriptional activator, respectively, as well assulfate transport and sulfur metabolism genes. Collectively, theseresults suggest that S. oneidensis modulates multiple transporters, cellenvelope components, and pathways of amino acid consumption and centralintermediary metabolism as part of its transcriptome response to changingexternal pH conditions.},
doi = {},
journal = {Journal of Bacteriology},
number = 4,
volume = 188,
place = {United States},
year = {Mon Apr 02 00:00:00 EDT 2007},
month = {Mon Apr 02 00:00:00 EDT 2007}
}