ArticleNucleic acids research2009
An analytical platform for mass spectrometry-based identification and chemical analysis of RNA in ribonucleoprotein complexes.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 54 citations in OpenAlex.
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- A nanogram-sensitive workflow for oligonucleotide mass spectrometry using ion-pair-free nanoflow HILIC and RNase benchmarking.Nucleic acids research · 2026Article
- De novo direct sequencing of small therapeutic RNAs by layer-by-layer intensity-resolved mass spectrometry.Nucleic acids research · 2026Article
- Liquid Chromatography-Mass Spectrometry-Based Qualitative Profiling of mRNA Therapeutic Reagents Using Stable Isotope-Labeled Standards Followed by the Automatic Quantitation Software Ariadne.Analytical chemistry · 2023Article
- Characterization and Sequence Mapping of Large RNA and mRNA Therapeutics Using Mass Spectrometry.Analytical chemistry · 2022Article
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- n-Butylamine for Improving the Efficiency of Untargeted Mass Spectrometry Analysis of Plasma Metabolite Composition.International journal of molecular sciences · 2019Article
- Low-fluence blue light-induced phosphorylation of Zmphot1 mediates the first positive phototropism.Journal of experimental botany · 2019Article
- High resolution fingerprinting of single and double-stranded RNA using ion-pair reverse-phase chromatography.Journal of chromatography. B, Analytical technologies in the biomedical and life sciences · 2019Article
- Landscape of the complete RNA chemical modifications in the human 80S ribosome.Nucleic acids research · 2018Article
- Truncated forms of U2 snRNA (U2-tfs) are shunted toward a novel uridylylation pathway that differs from the degradation pathway for U1-tfs.RNA biology · 2018Article
- Atomic resolution snapshot of Leishmania ribosome inhibition by the aminoglycoside paromomycin.Nature communications · 2017Article
- TDP-43 stabilises the processing intermediates of mitochondrial transcripts.Scientific reports · 2017Article
- Structural insights into Gemin5-guided selection of pre-snRNAs for snRNP assembly.Genes & development · 2016Article
- The complete chemical structure of Saccharomyces cerevisiae rRNA: partial pseudouridylation of U2345 in 25S rRNA by snoRNA snR9.Nucleic acids research · 2016Article
- A mass spectrometry-based method for direct determination of pseudouridine in RNA.Nucleic acids research · 2016Article
- A mass spectrometry-based method for comprehensive quantitative determination of post-transcriptional RNA modifications: the complete chemical structure of Schizosaccharomyces pombe ribosomal RNAs.Nucleic acids research · 2015Article
- Toll-like receptor 8 senses degradation products of single-stranded RNA.Nature structural & molecular biology · 2015Article
Corrections and comments
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We describe here a mass spectrometry (MS)-based analytical platform of RNA, which combines direct nano-flow reversed-phase liquid chromatography (RPLC) on a spray tip column and a high-resolution LTQ-Orbitrap mass spectrometer. Operating RPLC under a very low flow rate with volatile solvents and MS in the negative mode, we could estimate highly accurate mass values sufficient to predict the nucleotide composition of a approximately 21-nucleotide small interfering RNA, detect post-transcriptional modifications in yeast tRNA, and perform collision-induced dissociation/tandem MS-based structural analysis of nucleolytic fragments of RNA at a sub-femtomole level. Importantly, the method allowed the identification and chemical analysis of small RNAs in ribonucleoprotein (RNP) complex, such as the pre-spliceosomal RNP complex, which was pulled down from cultured cells with a tagged protein cofactor as bait. We have recently developed a unique genome-oriented database search engine, Ariadne, which allows tandem MS-based identification of RNAs in biological samples. Thus, the method presented here has broad potential for automated analysis of RNA; it complements conventional molecular biology-based techniques and is particularly suited for simultaneous analysis of the composition, structure, interaction, and dynamics of RNA and protein components in various cellular RNP complexes.
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Registered trials
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.