ArticleNucleic acids research2007
Identification of new noncoding RNAs in Listeria monocytogenes and prediction of mRNA targets.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 132 papers.
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132 citing papers in PubMed, 227 citations in OpenAlex.
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- High density genomic surveillance and risk profiling of clinical Listeria monocytogenes subtypes in Germany.Genome medicine · 2024Article
- Characterisation of the growth behaviour of Listeria monocytogenes in Listeria synthetic media.Environmental microbiology reports · 2023Article
- Large Multicountry Outbreak of Invasive Listeriosis by a Listeria monocytogenes ST394 Clone Linked to Smoked Rainbow Trout, 2020 to 2021.Microbiology spectrum · 2023Article
- Complete genome sequence and comparative analysis of aFrontiers in microbiology · 2023Article
- Identification and initial characterization of Hfq-associated sRNAs in Histophilus somni strain 2336.PloS one · 2023Article
- CRISPR-Cas systems: role in cellular processes beyond adaptive immunity.Folia microbiologica · 2022Review
- Small RNAs beyond Model Organisms: Have We Only Scratched the Surface?International journal of molecular sciences · 2022Article
- Identification of RNA Binding Partners of CRISPR-Cas Proteins in Prokaryotes Using RIP-Seq.Methods in molecular biology (Clifton, N.J.) · 2022Article
- CRISPR-Cas systems are present predominantly on chromosome and its relationship with MEGs in Vibrio species.Archives of microbiology · 2021Article
- Digging into the lesser-known aspects of CRISPR biology.International microbiology : the official journal of the Spanish Society for Microbiology · 2021Review
- Genomic analysis of high copy-number sequences for the targeted detection of Listeria species using a flow-through surveillance system.Archives of microbiology · 2021Article
- BSGatlas: a unifiedMicrobial genomics · 2021Article
- Diversity and Versatility in Small RNA-Mediated Regulation in Bacterial Pathogens.Frontiers in microbiology · 2021Review
- RNA-Mediated Control inFrontiers in microbiology · 2021Review
72 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To identify noncoding RNAs (ncRNAs) in the pathogenic bacterium Listeria monocytogenes, we analyzed the intergenic regions (IGRs) of strain EGD-e by in silico-based approaches. Among the twelve ncRNAs found, nine are novel and specific to the Listeria genus, and two of these ncRNAs are expressed in a growth-dependent manner. Three of the ncRNAs are transcribed in opposite direction to overlapping open reading frames (ORFs), suggesting that they act as antisense on the corresponding mRNAs. The other ncRNA genes appear as single transcription units. One of them displays five repeats of 29 nucleotides. Five of these new ncRNAs are absent from the non-pathogenic species L. innocua, raising the possibility that they might be involved in virulence. To predict mRNA targets of the ncRNAs, we developed a computational method based on thermodynamic pairing energies and known ncRNA-mRNA hybrids. Three ncRNAs, including one of the putative antisense ncRNAs, were predicted to have more than one mRNA targets. Several of them were shown to bind efficiently to the ncRNAs suggesting that our in silico approach could be used as a general tool to search for mRNA targets of ncRNAs.
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