ArticleBMC genomics2008
Biocomputational prediction of small non-coding RNAs in Streptomyces.
Article in BMC genomics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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Who cites it
44 citing papers in PubMed, 69 citations in OpenAlex.
- Identification of Small RNAs inInternational journal of molecular sciences · 2024Article
- Biocomputational Identification of sRNAs inIndian journal of microbiology · 2023Article
- Article
- An extended catalogue of ncRNAs in Streptomyces coelicolor reporting abundant tmRNA, RNase-P RNA and RNA fragments derived from pre-ribosomal RNA leader sequences.Archives of microbiology · 2022Article
- Genome-scale analysis of genetic regulatory elements in Streptomyces avermitilis MA-4680 using transcript boundary information.BMC genomics · 2022Article
- Ms1 RNA Interacts With the RNA Polymerase Core inFrontiers in microbiology · 2022Article
- 6S-Like scr3559 RNA Affects Development and Antibiotic Production inMicroorganisms · 2021Article
- Interplay between Non-Coding RNA Transcription, Stringent/Relaxed Phenotype and Antibiotic Production inAntibiotics (Basel, Switzerland) · 2021Article
- New proposal of nitrogen metabolism regulation by small RNAs in the extreme halophilic archaeon Haloferax mediterranei.Molecular genetics and genomics : MGG · 2020Article
- On a stake-out:Non-coding RNA research · 2019Review
- Comparative genomics of Mycobacterium mucogenicum and Mycobacterium neoaurum clade members emphasizing tRNA and non-coding RNA.BMC evolutionary biology · 2019Article
- Mycobacterium tuberculosis 6C sRNA binds multiple mRNA targets via C-rich loops independent of RNA chaperones.Nucleic acids research · 2019Article
- DNA mapping and kinetic modeling of the HrdB regulon in Streptomyces coelicolor.Nucleic acids research · 2019Article
- sRNA scr5239 Involved in Feedback Loop Regulation ofFrontiers in microbiology · 2019Article
- Small RNAs of Haloferax mediterranei: Identification and Potential Involvement in Nitrogen Metabolism.Genes · 2018Article
- RNase III-Binding-mRNAs Revealed Novel Complementary Transcripts inFrontiers in microbiology · 2017Article
- Genome-Wide Discovery of Putative sRNAs inFrontiers in microbiology · 2016Article
- A comparison of key aspects of gene regulation in Streptomyces coelicolor and Escherichia coli using nucleotide-resolution transcription maps produced in parallel by global and differential RNA sequencing.Molecular microbiology · 2014Article
- Inverse regulation of Fe- and Ni-containing SOD genes by a Fur family regulator Nur through small RNA processed from 3'UTR of the sodF mRNA.Nucleic acids research · 2014Article
- Small non-coding RNAs in streptomycetes.RNA biology · 2014Review
Corrections and comments
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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
backgroundThe first systematic study of small non-coding RNAs (sRNA, ncRNA) in Streptomyces is presented. Except for a few exceptions, the Streptomyces sRNAs, as well as the sRNAs in other genera of the Actinomyces group, have remained unstudied. This study was based on sequence conservation in intergenic regions of Streptomyces, localization of transcription termination factors, and genomic arrangement of genes flanking the predicted sRNAs.
resultsThirty-two potential sRNAs in Streptomyces were predicted. Of these, expression of 20 was detected by microarrays and RT-PCR. The prediction was validated by a structure based computational approach. Two predicted sRNAs were found to be terminated by transcription termination factors different from the Rho-independent terminators. One predicted sRNA was identified computationally with high probability as a Streptomyces 6S RNA. Out of the 32 predicted sRNAs, 24 were found to be structurally dissimilar from known sRNAs.
conclusionStreptomyces is the largest genus of Actinomyces, whose sRNAs have not been studied. The Actinomyces is a group of bacterial species with unique genomes and phenotypes. Therefore, in Actinomyces, new unique bacterial sRNAs may be identified. The sequence and structural dissimilarity of the predicted Streptomyces sRNAs demonstrated by this study serve as the first evidence of the uniqueness of Actinomyces sRNAs.
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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.