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RNA Biology Volume 17, 2020 - Issue 1
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Technical Paper

LOTTE-seq (Long hairpin oligonucleotide based tRNA high-throughput sequencing): specific selection of tRNAs with 3’-CCA end for high-throughput sequencing

Lieselotte Erbera Institute for Biochemistry, Leipzig University, Leipzig, GermanyORCID Iconhttps://orcid.org/0000-0002-3785-6975View further author information
ORCID Icon,
Anne Hoffmannb Bioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, Leipzig, GermanyORCID Iconhttps://orcid.org/0000-0003-3258-3397View further author information
ORCID Icon,
Jörg Fallmannb Bioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, Leipzig, GermanyORCID Iconhttps://orcid.org/0000-0002-4573-9939View further author information
ORCID Icon,
Heike Betata Institute for Biochemistry, Leipzig University, Leipzig, GermanyORCID Iconhttps://orcid.org/0000-0001-9110-7062View further author information
ORCID Icon,
Peter F. Stadlerb Bioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, Leipzig University, Leipzig, Germany;c German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Competence Center for Scalable Data Services and Solutions, and Leipzig Research Center for Civilization Diseases, Leipzig University, Leipzig, Germany;d Max Planck Institute for Mathematics in the Sciences, Leipzig, Germany;e Facultad de Ciencias, Universidad Nacional de Colombia, Sede Botoga, Colombia;f Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria;g Department of Theoretical Chemistry of the University of Vienna, Vienna, AustriaORCID Iconhttps://orcid.org/0000-0002-5016-5191View further author information
ORCID Icon &
Mario Mörla Institute for Biochemistry, Leipzig University, Leipzig, GermanyCorrespondence[email protected]
ORCID Iconhttps://orcid.org/0000-0003-0972-9386View further author information
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Pages 23-32 | Received 17 Jul 2019, Accepted 31 Aug 2019, Published online: 16 Sep 2019

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V. Janett Olzog, Christiane Gärtner, Peter F. Stadler, Jörg Fallmann & Christina E. Weinberg. (2021) cyPhyRNA-seq: a genome-scale RNA-seq method to detect active self-cleaving ribozymes by capturing RNAs with 2ʹ,3ʹ cyclic phosphates and 5ʹ hydroxyl ends. RNA Biology 18:sup2, pages 818-831.
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Articles from other publishers (14)

Jeff Coller & Zoya Ignatova. (2023) tRNA therapeutics for genetic diseases. Nature Reviews Drug Discovery.
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Morghan C. Lucas, Leszek P. Pryszcz, Rebeca Medina, Ivan Milenkovic, Noelia Camacho, Virginie Marchand, Yuri Motorin, Lluís Ribas de Pouplana & Eva Maria Novoa. (2023) Quantitative analysis of tRNA abundance and modifications by nanopore RNA sequencing. Nature Biotechnology.
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Chantal Scheepbouwer, Ernesto Aparicio-Puerta, Cristina Gomez-Martin, Heleen Verschueren, Monique van Eijndhoven, Laurine E. Wedekind, Stavros Giannoukakos, Nathalie Hijmering, Lisa Gasparotto, Hilde T. van der Galien, Roos S. van Rijn, Eleonora Aronica, Robby Kibbelaar, Vivi M. Heine, Pieter Wesseling, David P. Noske, W. Peter Vandertop, Daphne de Jong, D. Michiel Pegtel, Michael Hackenberg, Tom Wurdinger, Alan Gerber & Danijela Koppers-Lalic. (2023) ALL-tRNAseq enables robust tRNA profiling in tissue samples. Genes & Development 37:5-6, pages 243-257.
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Sebastian G Gornik, Victor Flores, Franziska Reinhardt, Lieselotte Erber, Dayana E Salas-Leiva, Olga Douvropoulou, Imen Lassadi, Elin Einarsson, Mario Mörl, Anna Git, Peter F Stadler, Arnab Pain & Ross F Waller. (2022) Mitochondrial Genomes in Perkinsus Decode Conserved Frameshifts in All Genes . Molecular Biology and Evolution 39:10.
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Peng Yu, Siting Zhou, Yan Gao, Yu Liang, Wenbin Guo, Dan Ohtan Wang, Shuaiwen Ding, Shuibin Lin, Jinkai Wang & Yixian Cun. (2022) Dynamic landscapes of tRNA transcriptomes and translatomes in diverse mouse tissues. Genomics, Proteomics & Bioinformatics.
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V. Janett Olzog, Lena I. Freist, Robin Goldmann, Jörg Fallmann & Christina E. Weinberg. (2022) Application of RtcB ligase to monitor self-cleaving ribozyme activity by RNA-seq. Biological Chemistry 403:8-9, pages 705-715.
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Anna K. Lee, Iannis Aifantis & Palaniraja Thandapani. (2022) Emerging roles for tRNAs in hematopoiesis and hematological malignancies. Trends in Immunology 43:6, pages 466-477.
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Jiaojiao Li, Mengtong Tang & Hao Qi. (2022) Codon-Reduced Protein Synthesis With Manipulating tRNA Components in Cell-Free System. Frontiers in Bioengineering and Biotechnology 10.
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Wen Zhang, Marcus Foo, A. Murat Eren & Tao Pan. (2022) tRNA modification dynamics from individual organisms to metaepitranscriptomics of microbiomes. Molecular Cell 82:5, pages 891-906.
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Anne Hoffmann, Lieselotte Erber, Heike Betat, Peter F. Stadler, Mario Mörl & Jörg Fallmann. (2021) Changes of the tRNA Modification Pattern during the Development of Dictyostelium discoideum. Non-Coding RNA 7:2, pages 32.
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Zhao Zhang, Jian Zhang, Lixia Diao & Leng Han. (2021) Small non-coding RNAs in human cancer: function, clinical utility, and characterization. Oncogene 40:9, pages 1570-1577.
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Florian PICHOT, Virginie MARCHAND, Mark HELM & Yuri MOTORIN. (2021) Non-Redundant tRNA Reference Sequences for Deep Sequencing Analysis of tRNA Abundance and Epitranscriptomic RNA Modifications. Genes 12:1, pages 81.
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Irem Avcilar-Kucukgoze & Anna Kashina. (2020) Hijacking tRNAs From Translation: Regulatory Functions of tRNAs in Mammalian Cell Physiology. Frontiers in Molecular Biosciences 7.
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Lieselotte Erber, Anne Hoffmann, Jörg Fallmann, Monica Hagedorn, Christian Hammann, Peter F. Stadler, Heike Betat, Sonja Prohaska & Mario Mörl. (2020) Unusual Occurrence of Two Bona-Fide CCA-Adding Enzymes in Dictyostelium discoideum. International Journal of Molecular Sciences 21:15, pages 5210.
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