ArticleNucleic acids research2019
Systematic minimization of RNA ligase ribozyme through large-scale design-synthesis-sequence cycles.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed.
- Conditions Enabling the Persistence of Cooperating Synthetase, Ligase, and Mutation-Inhibitor Catalytic Polymers.Journal of molecular evolution · 2026Article
- Functional Analysis of Histidine-Dependent Self-Cleaving RNAs Obtained by In Vitro Selection.Chembiochem : a European journal of chemical biology · 2025Article
- CHiTA: A scarless high-throughput pipeline for characterization of ribozymes.Methods (San Diego, Calif.) · 2025Article
- Direct testing of natural twister ribozymes from over a thousand organisms reveals a broad tolerance for structural imperfections.Nucleic acids research · 2024Article
- A cis-acting ligase ribozyme generates circular RNA in vitro for ectopic protein functioning.Nature communications · 2024Article
- Design and Synthesis of Circular RNA Expression Vectors.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Molecular Anatomy of the Class I Ligase Ribozyme for Elucidation of the Activity-Generating Unit.Biology · 2023Article
- RNA ligase ribozymes with a small catalytic core.Scientific reports · 2023Article
- DNA storage-from natural biology to synthetic biology.Computational and structural biotechnology journal · 2023Review
- Acquisition of Dual Ribozyme-Functions in Nonfunctional Short Hairpin RNAs through Kissing-Loop Interactions.Life (Basel, Switzerland) · 2022Article
- Experimental exploration of a ribozyme neutral network using evolutionary algorithm and deep learning.Nature communications · 2022Article
- Hydrophobic-cationic peptides modulate RNA polymerase ribozyme activity by accretion.Nature communications · 2022Article
- Genome Evolution from Random Ligation of RNAs of Autocatalytic Sets.International journal of molecular sciences · 2021Article
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2 authors.
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Abstract
Template-directed RNA ligation catalyzed by an RNA enzyme (ribozyme) is a plausible and important reaction that could have been involved in transferring genetic information during prebiotic evolution. Laboratory evolution experiments have yielded several classes of ligase ribozymes, but their minimal sequence requirements remain largely unexplored. Because selection experiments strongly favor highly active sequences, less active but smaller catalytic motifs may have been overlooked in these experiments. We used large-scale DNA synthesis and high-throughput ribozyme assay enabled by deep sequencing to systematically minimize a previously laboratory-evolved ligase ribozyme. After designing and evaluating >10 000 sequences, we identified catalytic cores as small as 18 contiguous bases that catalyze template-directed regiospecific RNA ligation. The fact that such a short sequence can catalyze this critical reaction suggests that similarly simple or even simpler motifs may populate the RNA sequence space which could have been accessible to the prebiotic ribozymes.
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