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Updated: Jun 13, 2026
11:37
Simultaneous DNA-RNA Extraction from Coastal Sediments and Quantification of 16S rRNA Genes and Transcripts by Real-time PCR
Published on: June 11, 2016
Identification of non-coding RNAs in environmental vibrios
Ana Cristina G Silveira1,2, Kelly L Robertson3, Baochuan Lin3
1National Laboratory for Scientific Computing (LNCC), Petrópolis, RJ, Brazil.
Microbiology (Reading, England)
|May 8, 2010
Summary
This study identifies diverse non-coding RNA (ncRNA) genes in environmental Vibrio species. Researchers experimentally confirmed the expression of 21 ncRNA genes in Vibrio campbellii, enhancing genomic annotation.
Area of Science:
- Microbiology
- Genomics
- Molecular Biology
Background:
- Non-coding RNA (ncRNA) discovery has been largely confined to model systems and pathogenic bacteria.
- Environmental Vibrio species represent a largely unexplored reservoir for novel ncRNAs.
Purpose of the Study:
- To investigate the diversity of ncRNA in four newly sequenced environmental Vibrio species.
- To computationally identify and experimentally validate ncRNA genes in Vibrio species.
Main Methods:
- In silico searches using Infernal and Rfam to identify putative ncRNA genes.
- Microarray-based expression profiling to validate ncRNA expression in Vibrio campbellii.
- Reverse transcription PCR to confirm expression of selected ncRNAs.
Main Results:
- Identified 31-38 putative ncRNA genes per species, encompassing diverse regulatory mechanisms.
- Experimentally validated the expression of 21 out of 38 predicted ncRNA genes in Vibrio campbellii.
- Confirmed expression of highly and moderately expressed ncRNAs using RT-PCR.
Conclusions:
- This study expands the known ncRNA repertoire in environmental Vibrio species.
- Provides a foundation for more accurate genomic annotation of Vibrio intergenic regions.
- Highlights the potential of environmental bacteria as sources of novel ncRNAs.
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