ArticleBMC molecular biology2008
In vivo analysis of Caenorhabditis elegans noncoding RNA promoter motifs.
Article in BMC molecular biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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9 citing papers in PubMed, 16 citations in OpenAlex.
- Light-induced protein translocation by genetically encoded unnatural amino acid in Caenorhabditis elegans.Protein & cell · 2013Article
- Integral nuclear pore proteins bind to Pol III-transcribed genes and are required for Pol III transcript processing in C. elegans.Molecular cell · 2013Article
- Regulatory elements of Caenorhabditis elegans ribosomal protein genes.BMC genomics · 2012Article
- A differential sequencing-based analysis of the C. elegans noncoding transcriptome.RNA (New York, N.Y.) · 2012Article
- Identification of intermediate-size non-coding RNAs involved in the UV-induced DNA damage response in C. elegans.PloS one · 2012Article
- Expanding the genetic code of an animal.Journal of the American Chemical Society · 2011Article
- The Caenorhabditis elegans intermediate-size transcriptome shows high degree of stage-specific expression.Nucleic acids research · 2011Article
- A small nucleolar RNA functions in rRNA processing in Caenorhabditis elegans.Nucleic acids research · 2010Article
- Nematode sbRNAs: homologs of vertebrate Y RNAs.Journal of molecular evolution · 2010Article
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNoncoding RNAs (ncRNAs) play important roles in a variety of cellular processes. Characterizing the transcriptional activity of ncRNA promoters is therefore a critical step toward understanding the complex cellular roles of ncRNAs.
resultsHere we present an in vivo transcriptional analysis of three C. elegans ncRNA upstream motifs (UM1-3). Transcriptional activity of all three motifs has been demonstrated, and mutational analysis revealed differential contributions of different parts of each motif. We showed that upstream motif 1 (UM1) can drive the expression of green fluorescent protein (GFP), and utilized this for detailed analysis of temporal and spatial expression patterns of 5 SL2 RNAs. Upstream motifs 2 and 3 do not drive GFP expression, and termination at consecutive T runs suggests transcription by RNA polymerase III. The UM2 sequence resembles the tRNA promoter, and is actually embedded within its own short-lived, primary transcript. This is a structure which is also found at a few plant and yeast loci, and may indicate an evolutionarily very old dicistronic transcription pattern in which a tRNA serves as a promoter for an adjacent snoRNA.
conclusionThe study has demonstrated that the three upstream motifs UM1-3 have promoter activity. The UM1 sequence can drive expression of GFP, which allows for the use of UM1::GFP fusion constructs to study temporal-spatial expression patterns of UM1 ncRNA loci. The UM1 loci appear to act in concert with other upstream sequences, whereas the transcriptional activities of the UM2 and UM3 are confined to the motifs themselves.
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