Erratum: Corrigendum: Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing

Fang, Gang; Múnera, Diana Paulina; Friedman, David I.; Mandlik, Anjali; Chao, Michael C.; Banerjee, Onureena; Feng, Zhixing; Losic, Bojan; Mahajan, Milind; Jabado, Omar; Deikus, Gintaras; Clark, Tyson A.; Luong, Khai; Murray, Iain A.; Davis, Brigid M.; Keren-Paz, Alona; Chess, Andrew; Roberts, Richard J.; Korlach, Jonas; Turner, Steve; Kumar, Vipin; Waldor, Matthew K.; Schadt, Eric E.

doi:10.1038/nbt0613-565f

Cited by 5 publications

(2 citation statements)

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“…Whereas our first maNCB design worked well for the G A TC site, it could not differentiate m 6 A from A on the CTGC A G site , (Target Sets 3 and 4 in Table S3). Instead, t served as a good recognition nucleotide for NC probe to detect m 6 A on the CTGC A G sites (Figure S5 and S6).…”

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confidence: 94%

“…This is partly due to the fact that detection of m 6 A at specific sites in a sequence is challenging. So far detection of N 6 -methyladenine in DNA has been demonstrated using a single-molecule, real-time sequencing method. , Detection of N 6 -methyladenosine in RNA has been shown using (1) nuclease cleavage followed by thin-layer chromatography (TLC) or mass spectrometry (MS), (2) immunocapturing of m 6 A-containing RNA fragments followed by sequencing, (3) ligation, and (4) a selective polymerase . However, these methods are laborious (e.g., require multiple steps to identify a single site), time-consuming (e.g., TLC and MS), and high-cost (e.g., enzymatic reaction).…”

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confidence: 99%

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NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine

et al. 2015

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While N(6)-methyladenine (m(6)A) is a common modification in prokaryotic and lower eukaryotic genomes and has many biological functions, there is no simple and cost-effective way to identify a single N(6)-methyladenine in a nucleic acid target. Here we introduce a robust, simple, enzyme-free and hybridization-based method using a new silver cluster probe, termed methyladenine-specific NanoCluster Beacon (maNCB), which can detect single m(6)A in DNA targets based on the fluorescence emission spectra of silver clusters. Not only can maNCB identify m(6)A at the single-base level but it also can quantify the extent of adenine methylation in heterogeneous samples. Our method is superior to high-resolution melting analysis as we can pinpoint the location of m(6)A in the target.

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NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine

et al. 2015

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Profiling of Human Gut Virome with Oxford Nanopore Technology

Cao

Zhang

Dai

et al. 2020

Medicine in Microecology

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Third generation sequencing technologies applied to diagnostic microbiology: benefits and challenges in applications and data analysis

Lavezzo

Barzon

Toppo

et al. 2016

Expert Review of Molecular Diagnostics

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Without claiming to be exhaustive with respect to all applications and methods developed over the years, this review focuses on the advantages and the issues brought by the new technologies, with an eye in particular to third generation sequencing methods. Both experimental procedures and algorithmic strategies are presented, following the most relevant publications which have led to progress in our ability of detecting infectious agents. Expert commentary: The technical advance brought by third generation sequencing platforms has the potential to significantly expand the range of diagnostic tools that will be available to clinicians. Nonetheless, the implementation of these technologies in clinical practice is still far from being actionable and will temporally follow the path undertaken by second generation methods, which still require the setup of standardized pipelines in both wet and dry laboratory procedures.

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Erratum: Corrigendum: Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing

Cited by 5 publications

References 1 publication

NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine

NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine

Profiling of Human Gut Virome with Oxford Nanopore Technology

Third generation sequencing technologies applied to diagnostic microbiology: benefits and challenges in applications and data analysis

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Erratum: Corrigendum: Genome-wide mapping of methylated adenine residues in pathogenic Escherichia coli using single-molecule real-time sequencing

Cited by 5 publications

References 1 publication

NanoCluster Beacons Enable Detection of a Single N6-Methyladenine

NanoCluster Beacons Enable Detection of a Single N6-Methyladenine

Profiling of Human Gut Virome with Oxford Nanopore Technology

Third generation sequencing technologies applied to diagnostic microbiology: benefits and challenges in applications and data analysis

Contact Info

Product

Resources

About

NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine

NanoCluster Beacons Enable Detection of a Single N⁶-Methyladenine