Literature DB >> 17150579

A novel method for sequence placement of modified nucleotides in mixtures of transfer RNA.

Tracy M Wagner1, Vinod Nair, Rebecca Guymon, Steven C Pomerantz, Pamela F Crain, Darrell R Davis, James A McCloskey.   

Abstract

Sequence placement of post-transcriptionally modified nucleosides in tRNA can be experimentally difficult, particularly in cases involving new or unexpected modifications or sequence sites. We describe a mass spectrometry-based approach to this problem, involving the following steps: crude isolations of one or several tRNAs by HPLC from an unfractionated tRNA mixture; digestion to oligonucleotide mixtures by RNase T1; analysis by combined HPLC/electrospray ionization-MS for recognition of modifications; and direct gas-phase sequencing of selected targets in the mixture by LC/MS/MS. Isoacceptor identity can be established in favorable cases when tRNA gene sequences are available.

Entities:  

Mesh：

Substances：

Year:  2004        PMID： 17150579     DOI： 10.1093/nass/48.1.263

Source DB:  PubMed          Journal:  Nucleic Acids Symp Ser (Oxf)        ISSN： 0261-3166


  10 in total

1.  Reverse Transcription Past Products of Guanine Oxidation in RNA Leads to Insertion of A and C opposite 8-Oxo-7,8-dihydroguanine and A and G opposite 5-Guanidinohydantoin and Spiroiminodihydantoin Diastereomers.

Authors:  Anton Alenko; Aaron M Fleming; Cynthia J Burrows
Journal:  Biochemistry       Date:  2017-09-11       Impact factor: 3.162

2.  Characterization of Apolipoprotein C3 (Apo C3) LNA/DNA Impurities and Degradation Products by LC-MS/MS.

Authors:  Olga V Friese; Justin B Sperry; Yan He; Liji Joseph; James A Carroll; Jason C Rouse
Journal:  AAPS J       Date:  2017-05-09       Impact factor: 4.009

3.  Stable Isotope Labeling for Improved Comparative Analysis of RNA Digests by Mass Spectrometry.

Authors:  Mellie June Paulines; Patrick A Limbach
Journal:  J Am Soc Mass Spectrom       Date:  2017-01-19       Impact factor: 3.109

4.  Enhanced detection of post-transcriptional modifications using a mass-exclusion list strategy for RNA modification mapping by LC-MS/MS.

Authors:  Xiaoyu Cao; Patrick A Limbach
Journal:  Anal Chem       Date:  2015-07-28       Impact factor: 6.986

Review 5.  The identification and characterization of non-coding and coding RNAs and their modified nucleosides by mass spectrometry.

Authors:  Kirk W Gaston; Patrick A Limbach
Journal:  RNA Biol       Date:  2014       Impact factor: 4.652

Review 6.  Mapping Post-Transcriptional Modifications onto  Transfer Ribonucleic Acid Sequences by Liquid  Chromatography Tandem Mass Spectrometry.

Authors:  Robert L Ross; Xiaoyu Cao; Patrick A Limbach
Journal:  Biomolecules       Date:  2017-02-22

7.  Matching tRNA modifications in humans to their known and predicted enzymes.

Authors:  Valérie de Crécy-Lagard; Pietro Boccaletto; Carl G Mangleburg; Puneet Sharma; Todd M Lowe; Sebastian A Leidel; Janusz M Bujnicki
Journal:  Nucleic Acids Res       Date:  2019-03-18       Impact factor: 16.971

8.  An analytical platform for mass spectrometry-based identification and chemical analysis of RNA in ribonucleoprotein complexes.

Authors:  Masato Taoka; Yoshio Yamauchi; Yuko Nobe; Shunpei Masaki; Hiroshi Nakayama; Hideaki Ishikawa; Nobuhiro Takahashi; Toshiaki Isobe
Journal:  Nucleic Acids Res       Date:  2009-11       Impact factor: 16.971

Review 9.  5-methylcytosine in RNA: detection, enzymatic formation and biological functions.

Authors:  Yuri Motorin; Frank Lyko; Mark Helm
Journal:  Nucleic Acids Res       Date:  2009-12-08       Impact factor: 16.971

10.  Comparative patterns of modified nucleotides in individual tRNA species from a mesophilic and two thermophilic archaea.

Authors:  Philippe Wolff; Claire Villette; Julie Zumsteg; Dimitri Heintz; Laura Antoine; Béatrice Chane-Woon-Ming; Louis Droogmans; Henri Grosjean; Eric Westhof
Journal:  RNA       Date:  2020-09-29       Impact factor: 4.942
  10 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.