Two distinct approaches are generally used to gain the information on the precise location of modification or editing sites in RNA molecules. The first is based on direct sequencing of pure RNA and is applied mostly for the analysis of rather short RNA molecules, while the other is based on ...
K. Comparative tRNA sequencing and RNA mass spectrometry for surveying tRNA modifications. Nat. Chem. Biol. 16, 964–972 (2020). CAS PubMed Google Scholar Suzuki, T., Nagao, A. & Suzuki, T. Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases. Annu. Rev. ...
A promising alternative to the use of NGS-based technologies to characterize the tRNAome is the direct RNA sequencing (DRS) platform developed by Oxford Nanopore Technologies (ONT). This technology allows direct sequencing of native RNA molecules and, as such, can, in principle, detect and measur...
Microbiome characterization by high-throughput transfer RNA sequencing and modification analysis
N1-methyladenosine (m1A) methylation on tRNA can be catalyzed by a methyltransferase complex consisting of an RNA binding subunit TRMT6 and a catalytic subunit TRMT61A, thus blocking TRMT6-TRMT61A interaction therefore holds the potential to suppress TRMT6/TRMT61A-driven tRNA m1A modification. ...
(Figure S5). We focus first on mRNA levels, as changes in translational efficiency of key regulators (such as transcription factors) can cause widespread physiological and transcriptional changes that are readily appreciated byRNA sequencing(RNA-seq), effectively amplifying the signal for biologically ...
tRNA was solely believed to be involved in cellular amino acid transportation. With the rapid advancements in technologies such as sequencing and mass spectrometry, the enigma surrounding tRNA modification regulatory mechanisms in tumor cells is gradually being unraveled, extending beyond its involvement in...
(Fig.16), which is relatively straightforward and still remains the method of choice in our own laboratory [90,96,97]. Others are the “REAP” and “CRAB” methods developed by Essigmann’s laboratory [98]. The last, which has become feasible in recent years, is total sequencing [99]...
Efficient and quantitative high-throughput tRNA sequencing. Nat. Methods 12, 835–837 (2015). CAS PubMed PubMed Central Google Scholar Richter, U. et al. RNA modification landscape of the human mitochondrial tRNA(Lys) regulates protein synthesis. Nat. Commun. 9, 3966 (2018). PubMed PubMed...
et al. Quantitative analysis of tRNA abundance and modifications by nanopore RNA sequencing. Nat. Biotechnol. (in the press). The publication presents a nanopore-based tRNA sequencing method to determine tRNA abundance and modification pattern in a single sequencing run. Shi, Y., Inoue, H., Wu...