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Hoffmann, A. ; Erber, L.* ; Betat, H.* ; Mörl, M.* ; Fallmann, J.*

Changes of the tRNA modification pattern during the development of Dictyostelium discoideum.

Non-coding RNA 7:32 (2021)
Verlagsversion DOI PMC
Open Access Gold
Creative Commons Lizenzvertrag
Dictyostelium discoideum is a social amoeba, which on starvation develops from a single-cell state to a multicellular fruiting body. This developmental process is accompanied by massive changes in gene expression, which also affect non-coding RNAs. Here, we investigate how tRNAs as key regulators of the translation process are affected by this transition. To this end, we used LOTTE-seq to sequence the tRNA pool of D. discoideum at different developmental time points and analyzed both tRNA composition and tRNA modification patterns. We developed a workflow for the specific detection of modifications from reverse transcriptase signatures in chemically untreated RNA-seq data at single-nucleotide resolution. It avoids the comparison of treated and untreated RNA-seq data using reverse transcription arrest patterns at nucleotides in the neighborhood of a putative modification site as internal control. We find that nucleotide modification sites in D. discoideum tRNAs largely conform to the modification patterns observed throughout the eukaroytes. However, there are also previously undescribed modification sites. We observe substantial dynamic changes of both expression levels and modification patterns of certain tRNA types during fruiting body development. Beyond the specific application to D. discoideum our results demonstrate that the developmental variability of tRNA expression and modification can be traced efficiently with LOTTE-seq.
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Publikationstyp Artikel: Journalartikel
Dokumenttyp Wissenschaftlicher Artikel
Schlagwörter Dictyostelium Discoideum ; Lotte-seq ; Chemical Modifications ; Fruiting Body Development ; Immature Reverse Transcriptase Arrest ; Trna Sequencing ; Transfer Rnas
Sprache englisch
Veröffentlichungsjahr 2021
HGF-Berichtsjahr 2021
ISSN (print) / ISBN 2311-553X
e-ISSN 2311-553X
Zeitschrift Non-coding RNA
Quellenangaben Band: 7, Heft: 2, Seiten: , Artikelnummer: 32 Supplement: ,
Verlag MDPI
Begutachtungsstatus Peer reviewed
Institut(e) Helmholtz Institute for Metabolism, Obesity and Vascular Research (HI-MAG)
POF Topic(s) 30201 - Metabolic Health
Forschungsfeld(er) Helmholtz Diabetes Center
PSP-Element(e) G-506501-001
Förderungen Deutsche Forschungsgemeinschaft
DOI 10.3390/ncrna7020032
Scopus ID 85107874157
PubMed ID 34071416
Erfassungsdatum 2021-07-06
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