Production and purification of endogenously modified tRNA-derived small RNAs.

RNA Biology
Aleksej DrinoMatthias R Schaefer

Abstract

During particular stress conditions, transfer RNAs (tRNAs) become substrates of stress-induced endonucleases, resulting in the production of distinct tRNA-derived small RNAs (tsRNAs). These small RNAs have been implicated in a wide range of biological processes, but how isoacceptor and even isodecoder-specific tsRNAs act at the molecular level is still poorly understood. Importantly, stress-induced tRNA cleavage affects only a few tRNAs of a given isoacceptor or isodecoder, raising the question as to how such limited molecule numbers could exert measurable biological impact. While the molecular function of individual tsRNAs is likely mediated through association with other molecules, addressing the interactome of specific tsRNAs has only been attempted by using synthetic RNA sequences. Since tRNAs carry post-transcriptional modifications, tsRNAs are likely modified but the extent of their modifications remains largely unknown. Here, we developed a biochemical framework for the production and purification of specific tsRNAs using human cells. Preparative scale purification of tsRNAs from biological sources should facilitate experimentally addressing as to how exactly these small RNAs mediate the multitude of reported molecular f...Continue Reading

References

Jan 23, 1996·Proceedings of the National Academy of Sciences of the United States of America·N RussoR Shapiro
Apr 29, 1997·Proceedings of the National Academy of Sciences of the United States of America·S W Santoro, G F Joyce
Feb 13, 2002·The Journal of Biological Chemistry·Shailendra K SaxenaRichard J Youle
Nov 8, 2005·The Journal of Biological Chemistry·Suzanne R Lee, Kathleen Collins
Nov 23, 2006·RNA Biology·Chandramani PathakManjula Vinayak
Dec 22, 2006·Analytical Biochemistry·Markus BuchhauptKarl-Dieter Entian
Aug 4, 2007·Methods in Enzymology·Yuri MotorinChristiane Branlant
Dec 31, 2008·FEBS Letters·Hanjiang FuXiaofei Zheng
Apr 1, 2009·The Journal of Cell Biology·Satoshi YamasakiPaul Anderson
Sep 29, 2009·Nucleic Acids Research·Mariana Pavon-EternodTao Pan
Dec 17, 2009·Nucleic Acids Research·Yuri MotorinMark Helm
May 13, 2010·Biochemistry·Yuri Motorin, Mark Helm
Aug 4, 2010·Genes & Development·Matthias SchaeferFrank Lyko
Aug 23, 2011·Molecular Cell·Pavel IvanovPaul Anderson
Jan 9, 2013·Proceedings of the National Academy of Sciences of the United States of America·Roy L MauteRiccardo Dalla-Favera
Jan 16, 2014·Chemical Research in Toxicology·Peter C Dedon, Thomas J Begley
May 17, 2014·Nucleic Acids Research·Takeo Suzuki, Tsutomu Suzuki
Jun 13, 2014·Methods in Molecular Biology·Simon P KeamGyorgy Hutvagner
Sep 16, 2014·FEBS Letters·Paul Anderson, Pavel Ivanov
Nov 19, 2014·Proceedings of the National Academy of Sciences of the United States of America·Pavel IvanovPaul Anderson
Jul 28, 2015·Nature Methods·Guanqun ZhengTao Pan
Aug 15, 2015·RNA Biology·Katharina SchmidMark Helm
Mar 11, 2016·BMC Bioinformatics·Aristeidis G TelonisIsidore Rigoutsos
Jun 25, 2016·The Journal of Endocrinology·Menghong Yan, Qiwei Zhai
Feb 2, 2017·Nature Reviews. Molecular Cell Biology·Cole J T LewisAuinash Kalsotra
Feb 22, 2017·Nature Reviews. Genetics·Mark Helm, Yuri Motorin
Mar 24, 2017·Nucleic Acids Research·German MartinezR Keith Slotkin
May 5, 2017·Nucleic Acids Research·Layla KawaradaTsutomu Suzuki
Jun 14, 2017·Wiley Interdisciplinary Reviews. RNA·Ana Raquel Soares, Manuel Santos
Jul 1, 2017·Cell·Andrea J SchornRob Martienssen
Oct 17, 2017·Methods in Molecular Biology·Phillipe LoherIsidore Rigoutsos
Nov 7, 2017·Nucleic Acids Research·Pietro BoccalettoJanusz M Bujnicki

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Citations

May 12, 2020·Nucleic Acids Research·Elisa VilardoWalter Rossmanith
Jul 28, 2020·RNA Biology·Norbert Polacek, Pavel Ivanov
Jan 4, 2021·Cellular and Molecular Life Sciences : CMLS·Srikar KrishnaDasaradhi Palakodeti
Apr 4, 2021·International Journal of Molecular Sciences·Marisa PereiraAna R Soares
Jun 1, 2021·Trends in Biochemical Sciences·Qi ChenTong Zhou
Sep 22, 2020·Molecular Therapy : the Journal of the American Society of Gene Therapy·Hak Kyun KimMark A Kay

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Methods Mentioned

BETA
affinity capture
ion-exchange chromatography
size
affinity
affinity purification

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