ArticleMolecular biology and evolution2018
Translation: The Universal Structural Core of Life.
Article in Molecular biology and evolution, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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Who cites it
51 citing papers in PubMed.
- Translation fidelity mechanisms and their changes in aging.bioRxiv : the preprint server for biology · 2026Article
- A family of ribosome hibernation factors widespread in Archaea.Nature communications · 2026Article
- Coevolution of RNase P and the ribosome.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Article
- Giant DNA viruses encode a hallmark translation initiation complex of eukaryotic life.bioRxiv : the preprint server for biology · 2025Article
- A tRNA modification with aminovaleramide facilitates AUA decoding in protein synthesis.Nature chemical biology · 2025Article
- Assessing Human Ribosomal DNA Variation and Its Association With Phenotypic Outcomes.BioEssays : news and reviews in molecular, cellular and developmental biology · 2025Review
- Structures of Saccharolobus solfataricus initiation complexes with leaderless mRNAs highlight archaeal features and eukaryotic proximity.Nature communications · 2025Article
- On the Nature of the Last Common Ancestor: A Story from its Translation Machinery.Journal of molecular evolution · 2024Review
- The Last Universal Common Ancestor of Ribosome-Encoding Organisms: Portrait of LUCA.Journal of molecular evolution · 2024Review
- The Beak of Eukaryotic Ribosomes: Life, Work and Miracles.Biomolecules · 2024Review
- Streamlining Protein Fractional Synthesis Rates Using SP3 Beads and Stable Isotope Mass Spectrometry: A Case Study on the Plant Ribosome.Bio-protocol · 2024Article
- Structural insights into the decoding capability of isoleucine tRNAs with lysidine and agmatidine.Nature structural & molecular biology · 2024Article
- Chapter 5: Major Biological Innovations in the History of Life on Earth.Astrobiology · 2024Article
- Ancestry of RNA/RNA interaction regions within segmented ribosomes.RNA (New York, N.Y.) · 2023Article
- On the origin of life: an RNA-focused synthesis and narrative.RNA (New York, N.Y.) · 2023Article
- Rare ribosomal RNA sequences from archaea stabilize the bacterial ribosome.Nucleic acids research · 2023Article
- Article
- Archaea/eukaryote-specific ribosomal proteins - guardians of a complex structure.Computational and structural biotechnology journal · 2023Review
- Evolution: Mitochondrial Ribosomes Across Species.Methods in molecular biology (Clifton, N.J.) · 2023Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Universal Gene Set of Life (UGSL) is common to genomes of all extant organisms. The UGSL is small, consisting of <100 genes, and is dominated by genes encoding the translation system. Here we extend the search for biological universality to three dimensions. We characterize and quantitate the universality of structure of macromolecules that are common to all of life. We determine that around 90% of prokaryotic ribosomal RNA (rRNA) forms a common core, which is the structural and functional foundation of rRNAs of all cytoplasmic ribosomes. We have established a database, which we call the Sparse and Efficient Representation of the Extant Biology (the SEREB database). This database contains complete and cross-validated rRNA sequences of species chosen, as far as possible, to sparsely and efficiently sample all known phyla. Atomic-resolution structures of ribosomes provide data for structural comparison and validation of sequence-based models. We developed a similarity statistic called pairing adjusted sequence entropy, which characterizes paired nucleotides by their adherence to covariation and unpaired nucleotides by conventional conservation of identity. For canonically paired nucleotides the unit of structure is the nucleotide pair. For unpaired nucleotides, the unit of structure is the nucleotide. By quantitatively defining the common core of rRNA, we systematize the conservation and divergence of the translational system across the tree of life, and can begin to understand the unique evolutionary pressures that cause its universality. We explore the relationship between ribosomal size and diversity, geological time, and organismal complexity.
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