Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions

Yuan, Jie; Wei, Buyun; Lipton, Mary S; Gao, Haichun

doi:10.1002/pmic.201100651

Title: Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions

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Abstract

Shewanella inhabit a wide variety of niches in nature and can utilize a broad spectrum of electron acceptors under anaerobic conditions. How they modulate their gene expression to adapt is poorly understood. ArcA, homologue of a global regulator controlling hundreds of genes involved in aerobic and anaerobic respiration in E. coli, was shown to be important in aerobiosis/anaerobiosis of S. oneidensis as well. Loss of ArcA, in addition to altering transcription of many genes, resulted in impaired growth under aerobic condition, which was not observed in E. coli. To further characterize the impact of ArcA loss on gene expression on the level of proteome under aerobic and anaerobic conditions, liquid-chromatography-mass-spectrometry (LC-MS) based proteomic approach was employed. Results show that ArcA loss led to globally altered gene expression, generally consistent with that observed with transcripts. Comparison of transcriptomic and proteomic data permitted identification of 17 high-confidence ArcA targets. Moreover, our data indicate that ArcA is required for regulation of cytochrome c proteins, and the menaquinone level may play a role in regulating ArcA as in E. coli. Proteomic-data-guided growth assay revealed that the aerobic growth defect of ArcA mutant is presumably due to impaired peptide utilization.

Authors:: Yuan, Jie; Wei, Buyun; Lipton, Mary S; Gao, Haichun

Publication Date:: Fri Jun 01 00:00:00 EDT 2012

Research Org.:: Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

Sponsoring Org.:: USDOE

OSTI Identifier:: 1050802

Report Number(s):: PNNL-SA-88125
KP1601010; TRN: US201218%%1571

DOE Contract Number:: AC05-76RL01830

Resource Type:: Journal Article

Journal Name:: Proteomics

Additional Journal Information:: Journal Volume: 12; Journal Issue: 12

Country of Publication:: United States

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; 60 APPLIED LIFE SCIENCES; AEROBIC CONDITIONS; ANAEROBIC CONDITIONS; BINDING ENERGY; CYTOCHROMES; DATA; DEFECTS; ELECTRONS; GENES; GROWTH; LEVELS; MUTANTS; PEPTIDES; PROTEINS; RESPIRATION; TARGETS; TRANSCRIPTION; VALENCE

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                    Yuan, Jie, Wei, Buyun, Lipton, Mary S, and Gao, Haichun. Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions.  United States: N. p., 2012. 
        Web.  doi:10.1002/pmic.201100651.

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                    Yuan, Jie, Wei, Buyun, Lipton, Mary S, & Gao, Haichun. Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions.  United States.  https://doi.org/10.1002/pmic.201100651

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                    Yuan, Jie, Wei, Buyun, Lipton, Mary S, and Gao, Haichun. 2012.  
        "Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions".  United States.  https://doi.org/10.1002/pmic.201100651.

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@article{osti_1050802,

  title        = {Impact of ArcA loss in Shewanella oneidensis revealed by comparative proteomics under aerobic and anaerobic conditions},

  author       = {Yuan, Jie and Wei, Buyun and Lipton, Mary S and Gao, Haichun},

  abstractNote = {Shewanella inhabit a wide variety of niches in nature and can utilize a broad spectrum of electron acceptors under anaerobic conditions. How they modulate their gene expression to adapt is poorly understood. ArcA, homologue of a global regulator controlling hundreds of genes involved in aerobic and anaerobic respiration in E. coli, was shown to be important in aerobiosis/anaerobiosis of S. oneidensis as well. Loss of ArcA, in addition to altering transcription of many genes, resulted in impaired growth under aerobic condition, which was not observed in E. coli. To further characterize the impact of ArcA loss on gene expression on the level of proteome under aerobic and anaerobic conditions, liquid-chromatography-mass-spectrometry (LC-MS) based proteomic approach was employed. Results show that ArcA loss led to globally altered gene expression, generally consistent with that observed with transcripts. Comparison of transcriptomic and proteomic data permitted identification of 17 high-confidence ArcA targets. Moreover, our data indicate that ArcA is required for regulation of cytochrome c proteins, and the menaquinone level may play a role in regulating ArcA as in E. coli. Proteomic-data-guided growth assay revealed that the aerobic growth defect of ArcA mutant is presumably due to impaired peptide utilization.},

  doi          = {10.1002/pmic.201100651},

  url          = {https://www.osti.gov/biblio/1050802},
  journal      = {Proteomics},
number       = 12,

  volume       = 12,

  place        = {United States},

  year         = {Fri Jun 01 00:00:00 EDT 2012},

  month        = {Fri Jun 01 00:00:00 EDT 2012}

}

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