ArcA regulator of gamma-proteobacteria: Identification of the binding signal and description of the regulon

A. V. Gerasimova; M. S. Gelfand; V. Yu Makeev; A. A. Mironov; A. V. Favorov

ArcA regulator of gamma-proteobacteria: Identification of the binding signal and description of the regulon

A. V. Gerasimova, M. S. Gelfand, V. Yu Makeev, A. A. Mironov, A. V. Favorov

Research output: Contribution to journal › Article › peer-review

Abstract

Basing on a common signal previously identified in nine regions upstream of Escherichia coli genes regulated by ArcA, orthologous ArcA-regulated genes were identified in genomes of gamma-proteobacteria: Escherichia coli, Yersinia pestis, Pasteurella multocida, and Vibrio vulnificus. In addition to 10 genes in the training set, 23 new genes with conserved candidate ArcA-binding sites were identified. Fourteen of them have been described in the literature as transcriptionally regulated depending on the oxygen level. A candidate site upstream of arcA makes it plausible that this gene is autoregulated by the negative feedback loop mechanism.

Original language	English (US)
Pages (from-to)	S21-S25
Journal	Biophysics
Volume	48
Issue number	SUPPL1
State	Published - 2003
Externally published	Yes

Keywords

Aerobic-anaerobic switch
ArcA
Gamma-proteobacteria
Gibbs sampler
Protein binding site
Protein-DNA binding
Regulation of transcription
SeSiMCMC

ASJC Scopus subject areas

Biophysics

Cite this

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abstract = "Basing on a common signal previously identified in nine regions upstream of Escherichia coli genes regulated by ArcA, orthologous ArcA-regulated genes were identified in genomes of gamma-proteobacteria: Escherichia coli, Yersinia pestis, Pasteurella multocida, and Vibrio vulnificus. In addition to 10 genes in the training set, 23 new genes with conserved candidate ArcA-binding sites were identified. Fourteen of them have been described in the literature as transcriptionally regulated depending on the oxygen level. A candidate site upstream of arcA makes it plausible that this gene is autoregulated by the negative feedback loop mechanism.",

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language = "English (US)",

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TY - JOUR

T1 - ArcA regulator of gamma-proteobacteria

T2 - Identification of the binding signal and description of the regulon

AU - Gerasimova, A. V.

AU - Gelfand, M. S.

AU - Makeev, V. Yu

AU - Mironov, A. A.

AU - Favorov, A. V.

PY - 2003

Y1 - 2003

N2 - Basing on a common signal previously identified in nine regions upstream of Escherichia coli genes regulated by ArcA, orthologous ArcA-regulated genes were identified in genomes of gamma-proteobacteria: Escherichia coli, Yersinia pestis, Pasteurella multocida, and Vibrio vulnificus. In addition to 10 genes in the training set, 23 new genes with conserved candidate ArcA-binding sites were identified. Fourteen of them have been described in the literature as transcriptionally regulated depending on the oxygen level. A candidate site upstream of arcA makes it plausible that this gene is autoregulated by the negative feedback loop mechanism.

AB - Basing on a common signal previously identified in nine regions upstream of Escherichia coli genes regulated by ArcA, orthologous ArcA-regulated genes were identified in genomes of gamma-proteobacteria: Escherichia coli, Yersinia pestis, Pasteurella multocida, and Vibrio vulnificus. In addition to 10 genes in the training set, 23 new genes with conserved candidate ArcA-binding sites were identified. Fourteen of them have been described in the literature as transcriptionally regulated depending on the oxygen level. A candidate site upstream of arcA makes it plausible that this gene is autoregulated by the negative feedback loop mechanism.

KW - Aerobic-anaerobic switch

KW - ArcA

KW - Gamma-proteobacteria

KW - Gibbs sampler

KW - Protein binding site

KW - Protein-DNA binding

KW - Regulation of transcription

KW - SeSiMCMC

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M3 - Article

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SN - 0006-3509

VL - 48

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JO - Biophysics (Russian Federation)

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IS - SUPPL1

ER -

ArcA regulator of gamma-proteobacteria: Identification of the binding signal and description of the regulon

Abstract

Keywords

ASJC Scopus subject areas

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