ArticleRNA biology2012
High throughput sequencing reveals a plethora of small RNAs including tRNA derived fragments in Haloferax volcanii.
Article in RNA biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
- Archaeal RNA processing and regulation: expanding the functional landscape.Microbiology and molecular biology reviews : MMBR · 2025Review
- Review
- Studying the long-term adaptation ofFrontiers in microbiology · 2025Article
- tsRNAs: A Prospective, Effective Therapeutic Intervention for Neurodegenerative Diseases.CNS neuroscience & therapeutics · 2024Review
- Increased Expression of Pluripotent Factors in Human Umbilical Cord Mesenchymal Stem Cells Transfected with Three tRF Molecules.Molecular biotechnology · 2023Article
- Differential Expression and Bioinformatics Analysis of tRF/tiRNA in Endometriosis Patients.BioMed research international · 2022Article
- Open Issues for Protein Function Assignment inGenes · 2021Article
- Transfer RNA-derived fragments in aging Caenorhabditis elegans originate from abundant homologous gene copies.Scientific reports · 2021Article
- Resection of piriform cortex predicts seizure freedom in temporal lobe epilepsy.Annals of clinical and translational neurology · 2021Article
- A Small RNA Is Linking CRISPR-Cas and Zinc Transport.Frontiers in molecular biosciences · 2021Article
- Coupling of Transcription and Translation in Archaea: Cues From the Bacterial World.Frontiers in microbiology · 2021Article
- Pathological significance of tRNA-derived small RNAs in neurological disorders.Neural regeneration research · 2020Article
- A Haloarchaeal Small Regulatory RNA (sRNA) Is Essential for Rapid Adaptation to Phosphate Starvation Conditions.Frontiers in microbiology · 2019Article
- Next Generation DNA-Seq and Differential RNA-Seq Allow Re-annotation of theFrontiers in microbiology · 2019Article
- Characterization of the transcriptome of Haloferax volcanii, grown under four different conditions, with mixed RNA-Seq.PloS one · 2019Article
- Transfer RNA-derived fragments and tRNA halves: biogenesis, biological functions and their roles in diseases.Journal of molecular medicine (Berlin, Germany) · 2018Review
- mRNA-specific translation regulation by a ribosome-associated ncRNA in Haloferax volcanii.Scientific reports · 2018Article
- A regulatory RNA is involved in RNA duplex formation and biofilm regulation in Sulfolobus acidocaldarius.Nucleic acids research · 2018Article
- Transcriptional Landscape and Regulatory Roles of Small Noncoding RNAs in the Oxidative Stress Response of the Haloarchaeon Haloferax volcanii.Journal of bacteriology · 2018Article
- Review
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To define the complete sRNA population of the halophilic archaeon Haloferax volcanii, we employed high throughput sequencing. cDNAs were generated from RNA ranging in size from 17 to 500 nucleotides isolated from cells grown at three different conditions to exponential and stationary phase, respectively. Altogether, 145 intergenic and 45 antisense sRNAs were identified. Comparison of the expression profile showed different numbers of reads at the six different conditions for the majority of sRNAs. A striking difference in the number of sRNA reads was observed between cells grown under standard vs. low salt conditions. Furthermore, the six highest numbers of reads were found for low salt conditions. In contrast, only slight differences between sRNA reads at different growth temperatures were detected. Attempts to delete four sRNA genes revealed that one sRNA gene is essential. The three viable sRNA gene deletion mutants possessed distinct phenotypes. According to microarray analyses, the removal of the sRNA gene resulted in a profound change of the transcriptome when compared with the wild type. High throughput sequencing also showed the presence of high concentrations of tRNA derived fragments in H. volcanii. These tRF molecules were shown to have different amounts of reads at the six conditions analyzed. Northern analysis was used to confirm the presence of the tRNA-derived fragments.
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