ArticleMolecular systems biology2009
A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability.
Article in Molecular systems biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed, 66 citations in OpenAlex.
- Genomic re-sequencing reveals mutational divergence across genetically engineered strains of model archaea.mSystems · 2025Article
- Elucidating metabolic pathways through genomic analysis in highly heavy metal-resistantHeliyon · 2024Article
- TbsP and TrmB jointly regulate gapII to influence cell development phenotypes in the archaeon Haloferax volcanii.Molecular microbiology · 2024Article
- A conserved transcription factor controls gluconeogenesis via distinct targets in hypersaline-adapted archaea with diverse metabolic capabilities.PLoS genetics · 2024Article
- Discovery of a novel transcriptional regulator of sugar catabolism in archaea.Molecular microbiology · 2023Article
- Article
- TrmB Family Transcription Factor as a Thiol-Based Regulator of Oxidative Stress Response.mBio · 2022Article
- Molecular acclimation ofFrontiers in microbiology · 2022Article
- An archaeal histone-like protein regulates gene expression in response to salt stress.Nucleic acids research · 2021Article
- Gene Expression ofInternational journal of molecular sciences · 2019Article
- Global Transcriptional Programs in Archaea Share Features with the Eukaryotic Environmental Stress Response.Journal of molecular biology · 2019Review
- Conserved principles of transcriptional networks controlling metabolic flexibility in archaea.Emerging topics in life sciences · 2018Article
- GlpR Is a Direct Transcriptional Repressor of Fructose Metabolic Genes in Haloferax volcanii.Journal of bacteriology · 2018Article
- A transcription network of interlocking positive feedback loops maintains intracellular iron balance in archaea.Nucleic acids research · 2017Article
- Detecting differential growth of microbial populations with Gaussian process regression.Genome research · 2017Article
- Global transcriptional regulator TrmB family members in prokaryotes.Journal of microbiology (Seoul, Korea) · 2016Review
- The genome-scale DNA-binding profile of BarR, a β-alanine responsive transcription factor in the archaeon Sulfolobus acidocaldarius.BMC genomics · 2016Article
- Genome-wide binding analysis of the transcriptional regulator TrmBL1 in Pyrococcus furiosus.BMC genomics · 2016Article
- The Proteome and Lipidome of Thermococcus kodakarensis across the Stationary Phase.Archaea (Vancouver, B.C.) · 2016Article
- TrmBL2 from Pyrococcus furiosus Interacts Both with Double-Stranded and Single-Stranded DNA.PloS one · 2016Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
During evolution, enzyme-coding genes are acquired and/or replaced through lateral gene transfer and compiled into metabolic pathways. Gene regulatory networks evolve to fine tune biochemical fluxes through such metabolic pathways, enabling organisms to acclimate to nutrient fluctuations in a competitive environment. Here, we demonstrate that a single TrmB family transcription factor in Halobacterium salinarum NRC-1 globally coordinates functionally linked enzymes of diverse phylogeny in response to changes in carbon source availability. Specifically, during nutritional limitation, TrmB binds a cis-regulatory element to activate or repress 113 promoters of genes encoding enzymes in diverse metabolic pathways. By this mechanism, TrmB coordinates the expression of glycolysis, TCA cycle, and amino-acid biosynthesis pathways with the biosynthesis of their cognate cofactors (e.g. purine and thiamine). Notably, the TrmB-regulated metabolic network includes enzyme-coding genes that are uniquely archaeal as well as those that are conserved across all three domains of life. Simultaneous analysis of metabolic and gene regulatory network architectures suggests an ongoing process of co-evolution in which TrmB integrates the expression of metabolic enzyme-coding genes of diverse origins.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.