NOTE] Probing the ArcA Regulon in the Rumen Bacterium Mannheimia succiniciproducens by Genome-Wide Expression Profiling

Seulgi Yun; Jong Moon Shin; Oh-Cheol Kim; Young Ryul Jung; Doo-Byoung Oh; Sang Yup Lee; Ohsuk Kwon

doi:10.1007/s12275-012-2007-7

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Research Support, Non-U.S. Gov't
NOTE] Probing the ArcA Regulon in the Rumen Bacterium Mannheimia succiniciproducens by Genome-Wide Expression Profiling: Seulgi Yun ^1,2, Jong Moon Shin ¹, Oh-Cheol Kim ¹, Young Ryul Jung ¹, Doo-Byoung Oh ^1,2, Sang Yup Lee ³, Ohsuk Kwon ^1,2; Journal of Microbiology 2012;50(4):665-672
DOI: https://doi.org/10.1007/s12275-012-2007-7
Published online: July 21, 2012

¹Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Republic of Korea, ²Biosystems and Bioengineering Program, University of Science and Technology, Daejeon 305-350, Republic of Korea, ³Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering, Center for Ultramicrochemical Process Systems, and Department of BioSystems, BioProcess Engineering Research Center and Bioinformatics Research Center, Korea Advanced Institute of Science and Technology, Daejeon 305-701, Republic of Korea¹Systems and Synthetic Biology Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon 305-806, Republic of Korea, ²Biosystems and Bioengineering Program, University of Science and Technology, Daejeon 305-350, Republic of Korea, ³Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering, Center for Ultramicrochemical Process Systems, and Department of BioSystems, BioProcess Engineering Research Center and Bioinformatics Research Center, Korea Advanced Institute of Science and Technology, Daejeon 305-701, Republic of Korea

Corresponding author: Ohsuk Kwon , Tel: +82-42-860-4459,

Received: 4 December 2011 • Accepted: 17 April 2012

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Abstract

In this study, the putative target genes of the Arc two-component system of the rumen bacterium Mannheimia succiniciproducens were determined by analyzing the transcriptome of the ArcA overexpression strain and by the in silico scanning of the entire genome sequence with the position weight matrix of the ArcA binding sequence developed for Escherichia coli. The majority of 79 repressed genes were involved in energy metabolism and carbohydrate transport and metabolism, while the majority of 82 induced genes were involved in hypothetical or unknown functions. Our results suggest that the Arc system in M. succiniciproducens has a specific function that differs from that in E. coli.

Keywords: two-component signal transduction system; ArcA response regulator; target genes; Mannheimia succiniciproducens

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NOTE] Probing the ArcA Regulon in the Rumen Bacterium Mannheimia succiniciproducens by Genome-Wide Expression Profiling

J. Microbiol. 2012;50(4):665-672. Published online July 21, 2012

DOI: https://doi.org/10.1007/s12275-012-2007-7

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