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The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent
TLDR
A characteristic signature of m1A is found, which, in addition to an arrest rate, features misincorporation as a significant component and depends on RNA structure and on the nature of the nucleotide 3′ ofm1A in the template RNA, meaning it is sequence dependent.
Pseudouridine Mapping in the Saccharomyces cerevisiae Spliceosomal U Small Nuclear RNAs (snRNAs) Reveals that Pseudouridine Synthase Pus1p Exhibits a Dual Substrate Specificity for U2 snRNA and tRNA
TLDR
Pus1p is the first UsnRNA pseudouridine synthase characterized so far which exhibits a dual substrate specificity, acting on both tRNAs and U2 snRNA, and is shown here to catalyze Ψ44 formation in the S. cerevisiae U2snRNA.
RNA nucleotide methylation
TLDR
This review outlines the different functions of methyl groups in RNA, including biophysical, biochemical and metabolic stabilization of RNA, quality control, resistance to antibiotics, mRNA reading frame maintenance, deciphering of normal and altered genetic code, selenocysteine incorporation, tRNA aminoacylation, ribotoxins, splicing, intracellular trafficking, immune response, and others.
5-methylcytosine in RNA: detection, enzymatic formation and biological functions
TLDR
An ordered overview of the detection methods for RNA methylation, of the biochemistry, enzymology and molecular biology of the corresponding modification enzymes, and discusses perspectives for the emerging biological functions of these enzymes are provided.
FTSJ3 is an RNA 2′-O-methyltransferase recruited by HIV to avoid innate immune sensing
TLDR
An unexpected mechanism used by HIV-1 to evade innate immune recognition is identified: the recruitment of the TRBP–FTSJ3 complex to viral RNA and its 2′-O-methylation.
Multisite-specific tRNA:m5C-methyltransferase (Trm4) in yeast Saccharomyces cerevisiae: identification of the gene and substrate specificity of the enzyme.
TLDR
The results indicate that yeast ORF YBL024w encodes S-adenosyl-L-methionine-dependent tRNA: m5C-methyltransferase that is capable of methylating cytosine tom5C at several positions in different yeast tRNAs and pre-tRNAs containing intron.
Evidence for rRNA 2′-O-methylation plasticity: Control of intrinsic translational capabilities of human ribosomes
TLDR
It is revealed that ribosomal RNA 2′-O-methylation can be modulated in human ribosomes, including at key functional sites for translation, and that changes in the 2′'-O- methylation pattern control the intrinsic capabilities of ribosome to translate mRNAs.
The yeast gene YNL292w encodes a pseudouridine synthase (Pus4) catalyzing the formation of psi55 in both mitochondrial and cytoplasmic tRNAs.
TLDR
chemical mapping of pseudouridine residues in both cytoplasmic and mitochondrial tRNAs from the yeast strain carrying the disrupted gene reveals that the same gene product is responsible for Psi55 formation in t RNAs of both cellular compartments.
tRNA stabilization by modified nucleotides.
TLDR
The intrinsic network of modifications in the structural core of the tRNA is reviewed, which governs structural flexibility and rigidity to fine-tune the molecule to peak performance and to regulate its steady-state level.
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