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Title: Comparative genomics of transcriptional regulation of methionine metabolism in proteobacteria

Journal Article · · PLoS ONE
 [1];  [1];  [2];  [3];  [4];  [5];  [6];  [7]
  1. Russian Academy of Sciences, Moscow (Russia). A.A. Kharkevich Institute for Information Transmission Problems.
  2. Moscow State Univ., Moscow (Russia). Faculty of Bioengineering and Bioinformatics.
  3. Comprehensive School, Moscow (Russia)
  4. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  5. Russian Academy of Sciences, Moscow (Russia). A.A. Kharkevich Institute for Information Transmission Problems; Moscow State Univ., Moscow (Russia). Faculty of Bioengineering and Bioinformatics.
  6. Russian Academy of Sciences, Moscow (Russia). A.A. Kharkevich Institute for Information Transmission Problems; Sanford-Burnham Medical Research Inst., La Jolla, CA (United States)
  7. Univ. of Groningen (Netherlands)
+ Show Author Affiliations

Methionine metabolism and uptake genes in Proteobacteria are controlled by a variety of RNA and DNA regulatory systems. We have applied comparative genomics to reconstruct regulons for three known transcription factors, MetJ, MetR, and SahR, and three known riboswitch motifs, SAH, SAM-SAH, and SAM_alpha, in ~200 genomes from 22 taxonomic groups of Proteobacteria. We also identified two novel regulons: a SahR-like transcription factor SamR controlling various methionine biosynthesis genes in the Xanthomonadales group, and a potential RNA regulatory element with terminator-antiterminator mechanism controlling the metX or metZ genes in beta-proteobacteria. For each analyzed regulator we identified the core, taxon-specific and genome-specific regulon members. By analyzing the distribution of these regulators in bacterial genomes and by comparing their regulon contents we elucidated possible evolutionary scenarios for the regulation of the methionine metabolism genes in Proteobacteria.

Research Organization:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Organization:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
Grant/Contract Number:
AC02-05CH11231
OSTI ID:
1212374
Journal Information:
PLoS ONE, Vol. 9, Issue 11; ISSN 1932-6203
Publisher:
Public Library of ScienceCopyright Statement
Country of Publication:
United States
Language:
English
Citation Metrics:
Cited by: 15 works
Citation information provided by
Web of Science

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Cited By (5)

The rsmS (ybaM) mutation causes bypass suppression of the RsmAB post-transcriptional virulence regulation system in enterobacterial phytopathogens journal March 2019
Unraveling the role of quorum sensing-dependent metabolic homeostasis of the activated methyl cycle in a cooperative population of Burkholderia glumae journal July 2019
Riboswitch diversity and distribution journal April 2017
Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools journal January 2018
The rsmS (ybaM) mutation causes bypass suppression of the RsmAB post-transcriptional virulence regulation system in enterobacterial phytopathogens. journalarticle January 2019

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59 BASIC BIOLOGICAL SCIENCES
regulons
methionine
gene regulation
genome evolution
genomic databases
biosynthesis
regulator genes
comparative genomics