Evidence map›Paper›PMID 34995554›Full record

ReviewJournal of molecular biology2022

Genome Expansion by tRNA +1 Frameshifting at Quadruplet Codons.

Howard Gamper, Isao Masuda, Ya-Ming Hou

Abstract readReview
In one paragraph

Review in Journal of molecular biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed.

  1. Article
  2. Article
  3. Review
  4. Review
  5. Review
  6. Article
  7. Article
  8. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors.

Howard GamperDepartment of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, USA.
Isao MasudaDepartment of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, USA.
Ya-Ming HouDepartment of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, USA. Electronic address: ya-ming.hou@jefferson.edu.

Funding

tRNA in codon usageR35GM134931 · NIGMS · THOMAS JEFFERSON UNIVERSITY · PI HOU, YA-MING · 2020 to 2025
$5.4M
TrmD-targeting actinobacterial natural products as next generation antibioticsR01AI164490 · NIAID · THOMAS JEFFERSON UNIVERSITY · PI HOU, YA-MING, SHEN, BEN · 2021 to 2025
$4.2M
Discovery of Gram-negative permeable chemical probes for tRNA methylationR01AI139202 · NIAID · THOMAS JEFFERSON UNIVERSITY · PI HOU, YA-MING · 2019 to 2022
$2.4M
NIAID NIH HHS R01 AI139202NIAID NIH HHS R01 AI164490NIGMS NIH HHS R35 GM134931
6 · The paper itself

Abstract

Inducing tRNA +1 frameshifting to read a quadruplet codon has the potential to incorporate a non-canonical amino acid (ncAA) into the polypeptide chain. While this strategy is attractive for genome expansion in biotechnology and bioengineering endeavors, improving the yield is hampered by a lack of understanding of where the shift can occur in an elongation cycle of protein synthesis. Lacking a clear answer to this question, current efforts have focused on designing +1-frameshifting tRNAs with an extra nucleotide inserted to the anticodon loop for pairing with a quadruplet codon in the aminoacyl-tRNA binding (A) site of the ribosome. However, the designed and evolved +1-frameshifting tRNAs vary broadly in achieving successful genome expansion. Here we summarize recent work on +1-frameshifting tRNAs. We suggest that, rather than engineering the quadruplet anticodon-codon pairing scheme at the ribosome A site, efforts should be made to engineer the pairing scheme at steps after the A site, including the step of the subsequent translocation and the step that stabilizes the pairing scheme in the +1-frame in the peptidyl-tRNA binding (P) site.

Indexed as

CodonFrameshifting, RibosomalGenetic CodeProtein EngineeringRNA, TransferAnticodonBase PairingEscherichia coliRibosomesAnticodonCodonRNA, Transferm(1)G37-tRNAmcmo(5)U34-tRNAProL tRNAProM tRNASufB2 tRNA

Identifiers

PMID34995554
PMCPMC9643101

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

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.