ArticleJournal of bacteriology2015
Comparative genomics of DtxR family regulons for metal homeostasis in Archaea.
Article in Journal of bacteriology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed, 31 citations in OpenAlex.
- Cell-free recombinase-integrated Boolean output system.Cell systems · 2025Article
- Transcriptomic profiling of haloarchaeal denitrification through RNA-Seq analysis.Applied and environmental microbiology · 2024Article
- Identification of structural and regulatory cell-shape determinants in Haloferax volcanii.Nature communications · 2024Article
- TroR is the primary regulator of the iron homeostasis transcription network in the halophilic archaeon Haloferax volcanii.Nucleic acids research · 2024Article
- Genome-scale identification and comparative analysis of transcription factors in thermophilic cyanobacteria.BMC genomics · 2024Article
- Iron starvation results in up-regulation of a probableFrontiers in microbiology · 2024Article
- The molecular mechanisms of the bacterial iron sensor IdeR.Biochemical Society transactions · 2023Article
- The pathogenic mechanism of Mycobacterium tuberculosis: implication for new drug development.Molecular biomedicine · 2022Review
- The bacterial iron sensor IdeR recognizes its DNA targets by indirect readout.Nucleic acids research · 2021Article
- From the Uncharacterized Protein Family 0016 to the GDT1 family: Molecular insights into a newly-characterized family of cation secondary transporters.Microbial cell (Graz, Austria) · 2020Review
- Ferric Uptake Regulator Provides a New Strategy for Acidophile Adaptation to Acidic Ecosystems.Applied and environmental microbiology · 2020Article
- Roles of TroA and TroR in Metalloregulated Growth and Gene Expression inJournal of bacteriology · 2020Article
- Conserved principles of transcriptional networks controlling metabolic flexibility in archaea.Emerging topics in life sciences · 2018Article
- Effect of UV irradiation on Sulfolobus acidocaldarius and involvement of the general transcription factor TFB3 in the early UV response.Nucleic acids research · 2018Article
- A transcription network of interlocking positive feedback loops maintains intracellular iron balance in archaea.Nucleic acids research · 2017Article
- Gene regulation of two ferredoxin:NADPExtremophiles : life under extreme conditions · 2017Article
- A novel bifunctional transcriptional regulator of riboflavin metabolism in Archaea.Nucleic acids research · 2017Article
- A Novel Transcriptional Regulator Related to Thiamine Phosphate Synthase Controls Thiamine Metabolism Genes in Archaea.Journal of bacteriology · 2017Article
- Novel Transcriptional Regulons for Autotrophic Cycle Genes in Crenarchaeota.Journal of bacteriology · 2015Article
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Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The DtxR family consists of metal-dependent transcription factors (DtxR-TFs) that regulate the expression of genes involved in metal homeostasis in the cell. The majority of characterized DtxR-TFs belong to Bacteria. In the current work, we applied a comparative genomics approach to predict DNA-binding sites and reconstruct regulons for DtxR-TFs in Archaea. As a result, we inferred 575 candidate binding sites for 139 DtxR-TFs in 77 genomes from 15 taxonomic orders. Novel DNA motifs of archaeal DtxR-TFs that have a common palindromic structure were classified into 10 distinct groups. By combining functional regulon reconstructions with phylogenetic analysis, we selected 28 DtxR-TF clades and assigned them metal specificities and regulator names. The reconstructed FetR (ferrous iron), MntR (manganese), and ZntR (zinc) regulons largely contain known or putative metal uptake transporters from the FeoAB, NRAMP, ZIP, and TroA families. A novel family of putative iron transporters (named Irt), including multiple FetR-regulated paralogs, was identified in iron-oxidizing Archaea from the Sulfolobales order. The reconstructed DtxR-TF regulons were reconciled with available transcriptomics data in Archaeoglobus, Halobacterium, and Thermococcus spp.
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