The RNA ligase RtcB reverses MazF-induced ribosome heterogeneity in Escherichia coli. [PDF]
Nucleic Acids Res, 2017 When Escherichia coli encounters stress, the endoribonuclease MazF initiates a post-transcriptional response that results in the reprogramming of protein synthesis.
Temmel H +7 more
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Elimination of ligation dependent artifacts in T4 RNA ligase to achieve high efficiency and low bias microRNA capture. [PDF]
PLoS ONE, 2014 Adapter ligation is a critical first step in many microRNA analysis methods including microarray, qPCR, and sequencing. Previous studies have shown that ligation bias can have dramatic effects on both the fidelity of expression profiles and ...
Yunke Song, Kelvin J Liu, Tza-Huei Wang
doaj +2 more sources
Purification of Histidine-Tagged T4 RNA Ligase from E. coli [PDF]
BioTechniques, 2002 Here we report the construction of a histidine-tagged T4 RNA ligase expression plasmid (pRHT4). The construct, when overexpressed in BL21 (DE3) cells, allows the preparation of large quantities of T4 RNA ligase in high purity using only a single ...
Qing S. Wang, Peter J. Unrau
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Coevolution of RtcB and Archease created a multiple-turnover RNA ligase. [PDF]
RNA, 2015 RtcB is a noncanonical RNA ligase that joins either 2′,3′-cyclic phosphate or 3′-phosphate termini to 5′-hydroxyl termini. The genes encoding RtcB and Archease constitute a tRNA splicing operon in many organisms.
Desai KK, Beltrame AL, Raines RT.
europepmc +2 more sources
Structure and two-metal mechanism of a eukaryal nick-sealing RNA ligase. [PDF]
Proc Natl Acad Sci U S A, 2015 Significance Polynucleotide ligases are an ancient superfamily of nucleic acid repair enzymes that join 3′-OH and 5′-PO4 DNA or RNA ends. Ligases react with ATP or NAD+ to form a covalent enzyme–adenylate intermediate in which AMP is linked via a P–N ...
Unciuleac MC, Goldgur Y, Shuman S.
europepmc +2 more sources
Adenylylation of small RNA sequencing adapters using the TS2126 RNA ligase I. [PDF]
RNA, 2016 Many high-throughput small RNA next-generation sequencing protocols use 5′ preadenylylated DNA oligonucleotide adapters during cDNA library preparation. Preadenylylation of the DNA adapter's 5′ end frees from ATP-dependence the ligation of the adapter to
Lama L, Ryan K.
europepmc +2 more sources
Genetic and Functional Analyses of Archaeal ATP-Dependent RNA Ligase in C/D Box sRNA Circularization and Ribosomal RNA Processing [PDF]
Frontiers in Molecular Biosciences, 2022 RNA ligases play important roles in repairing and circularizing RNAs post-transcriptionally. In this study, we generated an allelic knockout of ATP-dependent RNA ligase (Rnl) in the hyperthermophilic archaeon Thermococcus kodakarensis to identify its ...
Yancheng Liu +7 more
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Plant Methods, 2012 Background Deep sequencing is a powerful tool for novel small RNA discovery. Illumina small RNA sequencing library preparation requires a pre-adenylated 3’ end adapter containing a 5’,5’-adenyl pyrophosphoryl moiety.
Chen Yun-Ru +5 more
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T4 RNA Ligase 2 truncated active site mutants: improved tools for RNA analysis
BMC Biotechnology, 2011 Background T4 RNA ligases 1 and 2 are useful tools for RNA analysis. Their use upstream of RNA analyses such as high-throughput RNA sequencing and microarrays has recently increased their importance.
Zhuang Fanglei +4 more
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Direct adenylation from 5'-OH-terminated oligonucleotides by a fusion enzyme containing Pfu RNA ligase and T4 polynucleotide kinase. [PDF]
Nucleic Acids Res, 2022 Yang Z +10 more
europepmc +2 more sources