ArticleChembiochem : a European journal of chemical biology2022
Opportunities and Challenges to Profile mRNA Modifications in Escherichia coli.
Article in Chembiochem : a European journal of chemical biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 21 citations in OpenAlex.
- Epitranscriptomic control of stress adaptations in Escherichia coli.Nucleic acids research · 2026Article
- Novel molecular assessment method using precursor ribosomal RNA to rapidly quantify hard-to-monitor pathogens in aqueous suspensions: application to ultraviolet disinfection ofJournal of water and health · 2025Article
- Enhanced detection of RNA modifications in Escherichia coli utilizing direct RNA sequencing.Cell reports methods · 2025Article
- Direct RNA sequencing of the Escherichia coli epitranscriptome uncovers alterations under heat stress.Nucleic acids research · 2025Article
- Depletion of mMicrobiology spectrum · 2024Article
- Uncovering the transcriptome-wide RNA modifications inMicrobial genomics · 2024Article
- Dynamics of diversified A-to-I editing in Streptococcus pyogenes is governed by changes in mRNA stability.Nucleic acids research · 2024Article
- Analysis of bacterial transcriptome and epitranscriptome using nanopore direct RNA sequencing.Nucleic acids research · 2024Article
- The molecular basis of tRNA selectivity by human pseudouridine synthase 3.Molecular cell · 2024Article
- Analysis of RNA and Its Modifications.Annual review of analytical chemistry (Palo Alto, Calif.) · 2024Review
- Opportunities and Challenges to Profile mRNA Modifications in Escherichia coli.Chembiochem : a European journal of chemical biology · 2022Article
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
mRNA methylation is an important regulator of many physiological processes in eukaryotes but has not been studied in depth in prokaryotes. Working with bacterial mRNA is challenging because it lacks a poly(A)-tail. However, methods for detecting RNA modifications, both sequencing and mass spectrometry, rely on efficient preparation of mRNA. Here, we compared size-dependent separation by electrophoresis and rRNA depletion for enrichment of Escherichia coli mRNA. The purification success was monitored by qRT-PCR and RNA sequencing. Neither method allowed complete removal of rRNA. Nevertheless, we were able to quantitatively analyze several modified nucleosides in the different RNA types. We found evidence for stress dependent RNA modification reprofiling in rRNA, but also several modified nucleosides in the mRNA enriched fractions showed significant changes.
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