Evidence map›Paper›PMID 41980722›Full record

ArticleOpen biology2026

tRNA modification landscapes in streptococci: shared losses and clade-specific adaptations.

Ho-Ching Tiffany Tsui, Chi-Kong Chan, Yifeng Yuan, Roba Elias, Jingjing Sun, Virginie Marchand, Marshall Jaroch, Guangxin Sun, Irfan Manzoor, Ana Kutchuashvili and 8 more

Abstract read
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Article in Open biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing 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

2 citing papers in PubMed.

  1. Compendium of RNA modifications for bacterial stress adaptation.Microbiology and molecular biology reviews : MMBR · 2026
    Review
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

18 authors.

Ho-Ching Tiffany TsuiDepartment of Biology, Indiana University Bloomington, Bloomington, IN, USA.ORCID 0000-0003-0849-874X
Chi-Kong ChanDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0001-7963-8725
Yifeng YuanDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.ORCID 0000-0002-9549-2698
Roba EliasDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.
Jingjing SunDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Virginie MarchandEpitranscriptomics and RNA Sequencing Core Facility, University of Lorraine, Nancy, France.ORCID 0000-0002-8537-1139
Marshall JarochDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.
Guangxin SunDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.
Irfan ManzoorDepartment of Bioinformatics and Biotechnology, Government College University Faisalabad, Faisalabad, Punjab, Pakistan.
Ana KutchuashviliDepartment of Chemistry, San Diego State University, San Diego, CA, USA.
Grazyna LeszczynskaInstitute of Organic Chemistry, Lodz University of Technology, Łódź, Poland.
Kinda SeatonDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.
Yuri MotorinEpitranscriptomics and RNA Sequencing Core Facility, University of Lorraine, Nancy, France.ORCID 0000-0002-8018-334X
Kelly RiceDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.ORCID 0000-0003-1335-4409
Manal SwairjoDepartment of Chemistry, San Diego State University, San Diego, CA, USA.ORCID 0000-0003-1334-1763
Peter C DedonDepartment of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA.ORCID 0000-0003-0011-3067
Malcolm E WinklerDepartment of Biology, Indiana University Bloomington, Bloomington, IN, USA.ORCID 0000-0002-1482-2588
Valérie de Crécy-LagardDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA.ORCID 0000-0002-9955-3785

Funding

New Regulatory Interactions and Circuits that Mediate the Dynamics, Homeostasis, and Stress Responses of Peptidoglycan Synthesis in the Superbug Streptococcus pneumoniaeR35GM131767 · NIGMS · TRUSTEES OF INDIANA UNIVERSITY · PI MALCOLM E. WINKLER · 2019 to 2026
$4.8M
RNA modification: Structure and MechanismR01GM110588 · NIGMS · WESTERN UNIVERSITY OF HEALTH SCIENCES · PI SWAIRJO, MANAL A · 2014 to 2024
$3.9M
International Human Frontier Science Program Organization https://dx.doi.org/10.13039/https://ror.org/02ebx7v45National Institutes of Health https://dx.doi.org/10.13039/https://ror.org/01cwqze88NIGMS NIH HHS R01 GM110588NIGMS NIH HHS R35 GM131767
6 · The paper itself

Abstract

tRNA modifications are central to bacterial translational control. Here, we integrated genetics, mass spectrometry, epitranscriptomics and comparative genomics to map the tRNA modification genes of the Gram-positive pathogens Streptococcus mutans and Streptococcus pneumoniae. Both species show a marked loss of modifications dependent on Fe-S enzymes, consistent with a broader trend of Fe-S enzyme reduction in Streptococcus central metabolism. In addition, the D, m1A, m7G, t6A and i6A modifications were mapped in S. pneumoniae tRNAs, and we confirmed that a unique DusB1 enzyme is responsible for the insertion of all the detectable D modifications. We uncovered differences in queuosine (Q) metabolism: while S. mutans synthesizes Q de novo, S. pneumoniae instead salvages preQ₁ and accumulates the epoxy-Q precursor, a strategy shared with multiple other streptococci as revealed by analysis of Q pathways in 1599 sequenced streptococcal genomes. Comparative essentiality profiling of modification genes revealed notable differences, including the essentiality of the N⁶-threonylcarbamoyladenosine (t⁶A) synthesis enzyme TsaE in S. pneumoniae but not in S. mutans, which was confirmed by genetic studies. We found that suppressor mutations in asnS encoding asparaginyl-tRNA synthetase (AsnRS) restored viability to ∆tsaE mutants, albeit with reduced growth. Our finding highlights the functional importance of modifications in the recognition of tRNAs by aminoacyl-tRNA synthetases.

Indexed as

RNA, BacterialRNA Processing, Post-TranscriptionalRNA, TransferStreptococcus mutansStreptococcus pneumoniaeEpitranscriptomicsGenome, BacterialNucleoside QNucleoside QRNA, BacterialRNA, Transferdihydrouridinepseudogenequeuosinet6AtRNA modificationTsaE

Identifiers

PMID41980722

What OpenQuestion holds

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Registered trials

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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.