ArticleJournal of structural biology2012
Insights from the architecture of the bacterial transcription apparatus.
Article in Journal of structural biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 57 citations in OpenAlex.
- Chemical Evolution of Life on Earth.Genes · 2025Review
- Phylogeny and structural modeling of the transcription factor CsqR (YihW) from Escherichia coli.Scientific reports · 2024Article
- Tail-tape-fused virion and non-virion RNA polymerases of a thermophilic virus with an extremely long tail.Nature communications · 2024Article
- The small protein MntS evolved from a signal peptide and acquired a novel function regulating manganese homeostasis in Escherichia coli.Molecular microbiology · 2024Article
- Article
- Evolution of the genetic code.Transcription · 2021Review
- Jumbo Phages: A Comparative Genomic Overview of Core Functions and Adaptions for Biological Conflicts.Viruses · 2021Article
- Early Evolution of Transcription Systems and Divergence of Archaea and Bacteria.Frontiers in molecular biosciences · 2021Review
- Rewiring of growth-dependent transcription regulation by a point mutation in region 1.1 of the housekeeping σ factor.Nucleic acids research · 2020Article
- Multisubunit RNA Polymerases of Jumbo Bacteriophages.Viruses · 2020Review
- The replication machinery of LUCA: common origin of DNA replication and transcription.BMC biology · 2020Article
- Transcription apparatus of the yeast virus-like elements: Architecture, function, and evolutionary origin.PLoS pathogens · 2018Article
- G4PromFinder: an algorithm for predicting transcription promoters in GC-rich bacterial genomes based on AT-rich elements and G-quadruplex motifs.BMC bioinformatics · 2018Article
- Discovery of an expansive bacteriophage family that includes the most abundant viruses from the human gut.Nature microbiology · 2018Article
- Single-peptide DNA-dependent RNA polymerase homologous to multi-subunit RNA polymerase.Nature communications · 2017Article
- A novel bifunctional transcriptional regulator of riboflavin metabolism in Archaea.Nucleic acids research · 2017Article
- tRNA evolution from the proto-tRNA minihelix world.Transcription · 2016Article
- Transposons to toxins: the provenance, architecture and diversification of a widespread class of eukaryotic effectors.Nucleic acids research · 2016Article
- A model for genesis of transcription systems.Transcription · 2016Article
- Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling.Nucleic acids research · 2015Article
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
Abstract
We provide a portrait of the bacterial transcription apparatus in light of the data emerging from structural studies, sequence analysis and comparative genomics to bring out important but underappreciated features. We first describe the key structural highlights and evolutionary implications emerging from comparison of the cellular RNA polymerase subunits with the RNA-dependent RNA polymerase involved in RNAi in eukaryotes and their homologs from newly identified bacterial selfish elements. We describe some previously unnoticed domains and the possible evolutionary stages leading to the RNA polymerases of extant life forms. We then present the case for the ancient orthology of the basal transcription factors, the sigma factor and TFIIB, in the bacterial and the archaeo-eukaryotic lineages. We also present a synopsis of the structural and architectural taxonomy of specific transcription factors and their genome-scale demography. In this context, we present certain notable deviations from the otherwise invariant proteome-wide trends in transcription factor distribution and use it to predict the presence of an unusual lineage-specifically expanded signaling system in certain firmicutes like Paenibacillus. We then discuss the intersection between functional properties of transcription factors and the organization of transcriptional networks. Finally, we present some of the interesting evolutionary conundrums posed by our newly gained understanding of the bacterial transcription apparatus and potential areas for future explorations.
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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.