Evidence map›Paper›PMID 39658364›Full record

ArticleBioscience, biotechnology, and biochemistry2025

Angiogenin-catalyzed cleavage within tRNA anticodon-loops identified by cP-RNA-seq.

Megumi Shigematsu, Ryuma Matsubara, Justin Gumas, Takuya Kawamura, Yohei Kirino

Abstract read
In one paragraph

Article in Bioscience, biotechnology, and biochemistry, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

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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

5 authors.

Megumi ShigematsuComputational Medicine Center, Sidney Kimmel Medical College, Thomas Jefferson University, Philadelphia, PA, USA.
Ryuma MatsubaraComputational Medicine Center, Sidney Kimmel Medical College, Thomas Jefferson University, Philadelphia, PA, USA.
Justin GumasComputational Medicine Center, Sidney Kimmel Medical College, Thomas Jefferson University, Philadelphia, PA, USA.
Takuya KawamuraComputational Medicine Center, Sidney Kimmel Medical College, Thomas Jefferson University, Philadelphia, PA, USA.
Yohei KirinoComputational Medicine Center, Sidney Kimmel Medical College, Thomas Jefferson University, Philadelphia, PA, USA.ORCID 0000-0001-5232-4742

Funding

X-Ray Crystallography and Macromolecular CharacterizationP30CA056036 · NCI · THOMAS JEFFERSON UNIVERSITY · PI Claudio Guillermo Giraudo · 1995 to 2026
$94.8M
piRNA biogenesis ruled by PIWI-TUDOR interactionR01GM106047 · NIGMS · THOMAS JEFFERSON UNIVERSITY · PI KIRINO, YOHEI · 2013 to 2022
$2.8M
tRNA-derived non-coding RNAs in ASM function and in asthmaR01HL150560 · NHLBI · THOMAS JEFFERSON UNIVERSITY · PI DESHPANDE, DEEPAK A, KIRINO, YOHEI · 2020 to 2023
$2.4M
Role of tRNA- and rRNA-derived RNAs in acute lung injuryR01HL175371 · NHLBI · THOMAS JEFFERSON UNIVERSITY · PI Deepak A Deshpande, Yohei Kirino · 2024 to 2026
$1.9M
Biogenesis and function of cyclic phosphate-containing RNAsR35GM156496 · NIGMS · THOMAS JEFFERSON UNIVERSITY · PI Yohei Kirino · 2025 to 2026
$858k
Role of rRNA-derived short non-coding RNAs in innate immune responseR21AI168975 · NIAID · THOMAS JEFFERSON UNIVERSITY · PI KIRINO, YOHEI · 2022 to 2023
$429k
Endogenous single-stranded RNA ligands for endosomal Toll-like receptorsR21AI171366 · NIAID · THOMAS JEFFERSON UNIVERSITY · PI KIRINO, YOHEI · 2023 to 2024
$429k
American Lung Association Catalyst Award CA935540JSPSNCI NIH HHS P30 CA056036NHLBI NIH HHS R01 HL150560NHLBI NIH HHS R01 HL175371NIAID NIH HHS R21 AI168975NIAID NIH HHS R21 AI171366NIGMS NIH HHS R01 GM106047NIGMS NIH HHS R35 GM156496NIH HHS GM106047
6 · The paper itself

Abstract

Angiogenin (Ang), an endoribonuclease belonging to the RNase A superfamily, cleaves the anticodon-loops of tRNAs to produce tRNA-half molecules. Although previous studies have demonstrated the involvement of Ang in the pathobiology of neurodegenerative disorders, the characterization of Ang-generated tRNA halves in neuronal cells remains limited. This is partly due to the technical limitations of standard RNA-seq methods, which cannot capture Ang-generated RNAs containing a 2',3'-cyclic phosphate (cP). In this report, we established an Ang-treatment model using SH-SY5Y, a human neuroblastoma cell line, and demonstrated Ang-dependent accumulation of tRNA halves. By performing cP-RNA-seq, which selectively captures cP-containing RNAs, we identified Ang-generated tRNA halves and the specific cleavage positions within tRNA anticodon-loops responsible for their generation. Our results provide insights into the anticodon-loop cleavage and the selective production of a specific subset of tRNA halves by Ang.

Indexed as

AnticodonRibonuclease, PancreaticRNA-SeqRNA, TransferCell Line, TumorHumansRNA CleavageangiogeninAnticodonRibonuclease, PancreaticRNA, Transfer2′,3′-cyclic phosphateangiogenincP-RNA-seqtRNA half

Identifiers

PMID39658364
PMCPMC11840711

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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.