ArticleNature protocols2017
Capture and sequencing of NAD-capped RNA sequences with NAD captureSeq.
Article in Nature protocols, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed.
- Molecular insight into 5' RNA capping with NpNature chemical biology · 2026Article
- HIV-1 Infection Reduces NAD Capping of Host Cell snRNA and snoRNA.ACS chemical biology · 2024Article
- Identification and in vitro characterization of UDP-GlcNAc-RNA cap-modifying and decapping enzymes.Nucleic acids research · 2024Article
- Toll/interleukin-1 receptor (TIR) domain-containing proteins have NAD-RNA decapping activity.Nature communications · 2024Article
- Hidden features of NAD-RNA epitranscriptome iniScience · 2024Article
- Post-transcriptional capping generates coenzyme A-linked RNA.RNA biology · 2024Article
- Identification of NAD-RNA species and ADPR-RNA decapping in Archaea.Nature communications · 2023Article
- Future Perspectives for the Identification and Sequencing of Nicotinamide Adenine Dinucleotide-Capped RNAs.Accounts of chemical research · 2023Article
- Article
- The covalent nucleotide modifications within plant mRNAs: What we know, how we find them, and what should be done in the future.The Plant cell · 2023Article
- NADcapPro and circNC: methods for accurate profiling of NAD and non-canonical RNA caps in eukaryotes.Communications biology · 2023Article
- ONE-seq: epitranscriptome and gene-specific profiling of NAD-capped RNA.Nucleic acids research · 2023Article
- CAPturAM, a Chemo-Enzymatic Strategy for Selective Enrichment and Detection of Physiological CAPAM-Targets.Angewandte Chemie (International ed. in English) · 2023Article
- Opportunities and Challenges to Profile mRNA Modifications in Escherichia coli.Chembiochem : a European journal of chemical biology · 2022Article
- Labeling and sequencing nucleic acid modifications using bio-orthogonal tools.RSC chemical biology · 2022Review
- Xrn1 is a deNADding enzyme modulating mitochondrial NAD-capped RNA.Nature communications · 2022Article
- NAD-seq for profiling the NADSTAR protocols · 2021Article
- Applications and potentials of nanopore sequencing in the (epi)genome and (epi)transcriptome era.Innovation (Cambridge (Mass.)) · 2021Review
- Review
- Use of NAD tagSeq II to identify growth phase-dependent alterations inProceedings of the National Academy of Sciences of the United States of America · 2021Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Here we describe a protocol for NAD captureSeq that allows for the identification of nicotinamide-adenine dinucleotide (NAD)-capped RNA sequences in total RNA samples from different organisms. NAD-capped RNA is first chemo-enzymatically biotinylated with high efficiency, permitting selective capture on streptavidin beads. Then, a highly efficient library preparation protocol tailored to immobilized, 5'-modified RNA is applied, with adaptor ligation to the RNA's 3' terminus and reverse transcription (RT) performed on-bead. Then, cDNA is released into solution, tailed, ligated to a second adaptor and PCR-amplified. After next-generation sequencing (NGS) of the DNA library, enriched sequences are identified by comparison with a control sample in which the first step of chemo-enzymatic biotinylation is omitted. Because the downstream protocol does not necessarily rely on NAD-modified but on 'clickable' or biotin-modified RNA, it can be applied to other RNA modifications or RNA-biomolecule interactions. The central part of this protocol can be completed in ∼7 d, excluding preparatory steps, sequencing and bioinformatic analysis.
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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.