Cited by 72Origins and Evolution of LifeRNA and protein synthesis mechanismsDNA and Nucleic Acid Chemistry

Copying of RNA Sequences without Pre‐Activation

Open access
Jauker, Mario, Griesser, Helmut, Richert, Clemens·2015·Angewandte Chemie International Edition

Abstract

Template‐directed incorporation of nucleotides at the terminus of a growing complementary strand is the basis of replication. For RNA, this process can occur in the absence of enzymes, if the ribonucleotides are first converted to an active species with a leaving group. Thus far, the activation required a separate chemical step, complicating prebiotically plausible scenarios. Here we show that a combination of a carbodiimide and an organocatalyst induces near‐quantitative incorporation of any of the four ribonucleotides. Upon in situ activation, adenosine monophosphate was found to also form oligomers in aqueous solution. So, both de novo strand formation and sequence‐specific copying can occur without an artificial synthetic step.

Verified 2026-10-06 · 2 references not checked yet

AI snapshot

Written from the paper’s full text.

TL;DR

A carbodiimide plus an N-alkylated heterocycle enables in situ activation of free ribonucleotides, allowing enzyme-free primer extension on RNA templates without a separate pre-activation step. The same general condensation conditions also support untemplated oligomerization of ribonucleotides in aqueous solution.

Key findings

  • With 0.8 M EDC and 1-ethylimidazole, primer extension by GMP reached 90% after 48 h at 20 °C; UMP incorporation reached 92% after 120 h at 0 °C. Near-quantitative incorporation was observed for all four ribonucleotides opposite their complementary bases in immobilized assays.
  • Catalyst choice strongly affected copying: imidazole gave 2%, 2-methylimidazole 8%, 1-methyladenine 12%, and 1-ethylimidazole 32% extension after 24 h at pH 6.7. With 1-ethylimidazole, pH 7.5 gave 74% after 24 h and 90% after 48 h.
  • Mg2+ was the fastest divalent metal tested: 70% extension after 1 d and 90% after 2 d; no extension occurred without a divalent metal, while Mn2+ gave 10% and Ca2+ 25% after 24 h.
  • In situ activation also produced oligomers: for AMP, >90% of monomer was converted after 7 d, and chains of up to at least nine AMP residues were discernible after 30 d at 0 °C. For CMP, ≥25% monomer remained, and for UMP, ≥40% was unreacted after 7 d; GMP peaks were too broad for unambiguous assignment.

Methods

  • Primer extension assays used RNA template–primer duplexes, some immobilized on magnetic beads via hybridization, and were monitored by MALDI-TOF mass spectrometry.
  • Reactions used a “general condensation buffer”: 0.8 M EDC, 0.15 M 1-ethylimidazole, 0.08 M MgCl2, 0.5 M HEPES, pH 7.5, typically at 0 °C or 20 °C over days.
  • Oligomerization was tested by ion-exchange HPLC and MALDI MS for AMP, UMP, CMP, or GMP solutions after one week at 0 °C, with an AMP assay run for 30 d.

Limitations

  • The paper states that the strand-formation study was exploratory, that GMP oligomerization peaks were too broad for unambiguous assignment, and that mixed-sequence formation from all four ribonucleotides is presented in Ref. 33 rather than this work.
  • Evident from the text: copying is demonstrated mainly as single-nucleotide primer extension, often with a downstream tetramer or hairpin limiting chain growth, not full replication of arbitrary sequences.
  • Evident from the text: the conditions require high reagent concentrations, long reaction times, and low temperatures; prebiotic relevance is inferred from carbodiimide/cyanamide chemistry but not directly demonstrated here.

Model-written summary. Check it against the paper before relying on it.

Integrity signals

Registry

Crossref · 10.1002/anie.201506592

Cites

46 of 48 references verified0 citation errors · 0 not checkable

Statistics

Nothing to recompute.

Claims the paper makes

0 of 12 cited sources checked · 0 supported · 0 flagged

  • Findingown data

    In the absence of a divalent metal ion, no primer extension was observed.

    “In the absence of a divalent metal ion, no primer extension was observed.”
    Quote in the paperSubstantial claim
  • Findingown data

    The combination of a carbodiimide and an N-alkyl heterocycle as catalyst induces efficient copying reactions on RNA templates using unactivated, free ribonucleotides.

    “Here we show that a combination of a carbodiimide and an N-alkyl heterocycle as catalyst induces efficient copying reactions on RNA templates using unactivated, free ribonucleotides.”
    Quote in the paperSubstantial claim
  • Findingown data

    In each of three other templates offering C, G, or U, near-quantitative primer extension was observed with the corresponding ribonucleotide.

    “In each case near-quantitative primer extension was observed (Figure 3 b–d).”
    Quote in the paperSubstantial claim
  • Findingcitation

    The incorporation of AMP opposite U is less than one order of magnitude slower than similar reactions involving pre-activated forms of AMP.

    “This is less than one order of magnitude slower than similar reactions involving pre-activated forms of AMP.15, 39”
    Quote in the paperSubstantial claim0 of 2 sources checked
    • cites [15] Deck C Jauker M Richert C Nat. Chem 2011 3 603 608 21778979 source

      Not checked in the free run.

    • cites [39] Adamala K Szostak JW Science 2013 342 1098 1100 24288333 PMC4104020 source

      Not checked in the free run.

  • Findingown data

    A pH screen gave an optimum of 7.5 for primer extension.

    “A subsequent screen of pH values gave an optimum of 7.5.”
    Quote in the paperNot a substantial claim
  • May combine two claims. 7
  • The quote only partly states this claim. 1
  • May combine two claims.

    Findingown data

    Only for AMP >90% of the monomer was converted after 7 d, whereas for CMP ≥25% remained, and ≥40% of UMP was unreacted after 7 d.

    “Only for AMP >90 % of the monomer was converted after 7 d, whereas for CMP ≥25 % of the monomer remained, and ≥40 % of UMP was unreacted after 7 d.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    With 80 mM Mg2+, 70% extension after 1 d and 90% conversion after 2 d were observed.

    “The fastest reaction was observed with Mg2+, with 70 % extension after 1 d and 90 % conversion after 2 d (mass spectrum in Figure 2 a).”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Findingown data

    Both primer extension on preformed RNA strands and untemplated de novo oligomerization of ribonucleotides to RNA strands were observed.

    “Both primer extension on preformed RNA strands and the untemplated de novo oligomerization of ribonucleotides to RNA strands were observed.”
    Quote in the paperSubstantial claim
  • The quote only partly states this claim.

    Findingown data

    UMP incorporation opposite adenine was 75% after 2 d at 20 °C.

    “When uridine 5′-monophosphate (UMP), the most weakly pairing nucleotide,32 was offered to a primer on a template with adenine as the first templating base, 75 % incorporation occurred after 2 d.”
    Quote in the paperSubstantial claim0 of 1 sources checked
    • cites [32] Kervio E Claasen B Steiner UE Richert C Nucleic Acids Res 2014 42 7409 7420 24875480 PMC4066754 source

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    The oligomerization takes place at a fast enough rate to provide strands that may act as templates or primers, but slowly enough not to dominate the reaction landscape, so that it still allows for sequence-selective copying steps.

    “It takes place at a fast enough rate to provide strands that may act as templates or primers, but slowly enough not to dominate the reaction landscape, so that is still allows for sequence-selective copying steps.”
    Quote in the paperSubstantial claim
  • May combine two claims.

    Interpretationcitation

    The fast oligomerization of AMP contrasts with the slow primer extension on A-rich templates, suggesting a kinetic compensation.

    “The fast oligomerization of AMP is an interesting contrast to the slow primer extension on A-rich templates,40, 41 the second step of replication scenarios with strand formation and subsequent copying, suggesting a kinetic compensation.”
    Quote in the paperNot a substantial claim0 of 2 sources checked
    • cites [40] Hill AR Orgel LE Wu T Origins Life Evol. Biospheres 1993 23 285 290 8115162

      Not checked in the free run.

    • cites [41] Kervio E Hochgesand A Steiner UE Richert C Proc. Natl. Acad. Sci. USA 2010 107 12074 12079 20554916 PMC2901432

      Not checked in the free run.

  • May combine two claims.

    Interpretationown data

    Both de novo strand formation and sequence-specific copying can occur without an artificial synthetic step.

    “So, both de novo strand formation and sequence-specific copying can occur without an artificial synthetic step.”
    • Also stated in: § Abstract · boosted
      “This shows for the first time that genetic copying can occur without the synthetic step of pre-activation of the ribonucleotide.”
    Quote in the paperSubstantial claim
    • Rests on an assumption: 1-ethylimidazole (or an N-alkyl heterocycle) was available under prebiotic conditions.
    • Rests on an assumption: The high concentrations of EDC and ribonucleotides used are prebiotically plausible.
    • Rests on an assumption: The optimized reaction conditions (0.5 M HEPES, 0.08 M MgCl2, pH 7.5) are representative of prebiotic environments.
    • The authors state this as an assumption: Cyanamide is formed under prebiotic conditions.
  • May combine two claims.

    Interpretationown data

    General condensation conditions induce both high-yielding copying reactions and untemplated de novo formation of RNA strands.

    “Taken together, our results confirm that “general condensation conditions” induce both high-yielding copying reactions and the untemplated de novo formation of RNA strands.”
    Quote in the paperSubstantial claim
    • Rests on an assumption: 1-ethylimidazole (or an N-alkyl heterocycle) was available under prebiotic conditions.
    • Rests on an assumption: The high concentrations of EDC and ribonucleotides used are prebiotically plausible.
    • Rests on an assumption: The optimized reaction conditions (0.5 M HEPES, 0.08 M MgCl2, pH 7.5) are representative of prebiotic environments.
    • The authors state this as an assumption: Cyanamide is formed under prebiotic conditions.
8 of 8
  • The paper relies on this without support.

    1-ethylimidazole (or an N-alkyl heterocycle) was available under prebiotic conditions.

    “Here we show that a combination of a carbodiimide and an N-alkyl heterocycle as catalyst induces efficient copying reactions on RNA templates using unactivated, free ribonucleotides.”
    “The buffer thus optimized was dubbed “general condensation buffer” (0.8 m EDC, 0.15 m 1-ethylimidazole, 0.08 m MgCl2, 0.5 m HEPES, pH 7.5) and was used in all subsequent assays.”
  • The paper relies on this without support.

    The high concentrations of EDC and ribonucleotides used are prebiotically plausible.

    “High concentrations are characteristic of eutectic ice phases, and the beneficial effect of low temperatures for copying was known.”
    “Despite the high concentrations, which are reminiscent of what is found in eutectic ice phases,11 the reactions were surprisingly well behaved, with little to no side products detectable by MALDI MS.”
  • The paper relies on this without support.

    The optimized reaction conditions (0.5 M HEPES, 0.08 M MgCl2, pH 7.5) are representative of prebiotic environments.

    “The buffer thus optimized was dubbed “general condensation buffer” (0.8 m EDC, 0.15 m 1-ethylimidazole, 0.08 m MgCl2, 0.5 m HEPES, pH 7.5) and was used in all subsequent assays.”
  • The authors state this as an assumption.

    Cyanamide is formed under prebiotic conditions.

    “Carbodiimide is a tautomer of cyanamide, a compound formed under presumed prebiotic conditions.22–24”
4 of 4

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • Nucleoside 5'-phosphate reacts first with EDC to form a reactive isourea intermediate, then displacement by NEI yields NEI-activated monomers that can react with the primer.

    “The nucleoside 5 ′ -phosphate reacts first with EDC to form a reactive isourea intermediate, then displacement by NEI yields NEI-activated monomers that can then react with the primer”

    From Protocells and RNA Self-Replication (2018) · cites this paper as Jauker et al. 2015

    The paper reports primer extension using nucleoside 5′-monophosphates, EDC, and 1-ethylimidazole (Experimental Section, page unavailable). Its conclusion says a reactive imidazolium species is *expected* to form, but our copy does not describe an isourea intermediate or establish the claimed sequence of displacement and reaction with the primer. The claim presents that proposed mechanism as established. (LLM, conf=0.86)

    Experimental — accuracy not yet measured
  • Chemistry that would reactivate hydrolyzed substrates, such as EDC and an N-alkyl imidazole, could lead to a high ligation yield.

    “This suggests that chemistry that would reactivate hydrolyzed substrates, such as the combination of EDC and an N-alkyl imidazole explored by the Richert laboratory (Jauker et al. 2015), could lead to a high ligation yield.”

    From Protocells and RNA Self-Replication (2018) · cites this paper as Jauker et al. 2015

  • Binding of an unactivated AGC trimer downstream of an activated G monomer conferred only a modest increase in the rate of addition of the G monomer to the primer.

    “The binding of an unactivated AGC trimer, with either a 5′ hydroxyl or a 5′ phosphate, downstream of an activated G monomer conferred only a modest increase in the rate of addition of the G monomer to the primer (Figure 1c–f, reactions 4 and 5), consistent with previous reports of unactivated downstream ‘helper’ oligonucleotides (Deck et al., 2011; Jauker et al., 2015; Kervio et al., 2010).”

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

Each contradiction between two passages listed here was confirmed by an independent check.

  • Listed template bases omit the base needed for UMP copying

    Minor

    The three other templates are said to offer C, G, or U, yet the corresponding reactions include UMP. Elsewhere the paper identifies adenine-not any of those three bases-as the template base for UMP incorporation.

  • 2-Methylimidazole conversion disagrees with Table 1

    Minor

    The text says both imidazole and 2-methylimidazole gave 2% conversion after 24 hours, but Table 1 reports 8% for 2-methylimidazole under the listed conditions.

2 of 2

Cites

Flagged first, then by citations

Research works printed but not linked: 1

  1. M. Jauker H. Griesser C. Richert Angew. Chem. Int. Ed.­2015 DOI:10.1002/anie.201506593;Angew. Chem.­2015 DOI:10.1002/ange.201506593. · DOI

Cited by

Sorted by citations

Authors
Jauker, M., Griesser, H., & Richert, C.
Affiliations
University of Stuttgart (DE)
Corresponding author
Richert, Clemens
Venue
Angewandte Chemie International Edition
Publisher
Wiley
Published
2015-10-05
Volume
54
Issue
48
Pages
14559-14563
ISSN
  • 1433-7851 (ISSN-L)
  • 1521-3773
OpenAlex
W1819591220
Cited by
72
References
47
Citations by year
2026: 4 · 2025: 1 · 2024: 8 · 2023: 5 · 2022: 9 · 2021: 5 · 2020: 9 · 2019: 7 · 2018: 8 · 2017: 8 · 2016: 7 · 2015: 1
FWCI
4.55
Type
journal article
Language
en
Open access
Locations
  • Angewandte Chemie International Edition (publishedVersion, other-oa)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by-nc)
  • PubMed Central (publishedVersion, cc-by-nc)
  • PubMed (publishedVersion)
Funders
  • Funded Access
  • DFG (RI 1063/8-2)
  • EU
Topics
  • Physical Sciences › Physics and Astronomy › Astronomy and Astrophysics › Origins and Evolution of Life
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA and protein synthesis mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
Keywords
prebiotic chemistry, carbodiimides, organocatalysis, adenosine monophosphate
MeSH terms
Adenosine Monophosphate, RNA, Sequence Analysis, RNA

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