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Detection of tmRNA molecules on microarrays at low temperatures using helper oligonucleotides
- Source :
- BMC Biotechnology, Vol 10, Iss 1, p 34 (2010), BMC Biotechnology
- Publisher :
- Springer Nature
-
Abstract
- Background The hybridization of synthetic Streptococcus pneumoniae tmRNA on a detection microarray is slow at 34°C resulting in low signal intensities. Results We demonstrate that adding specific DNA helper oligonucleotides (chaperones) to the hybridization buffer increases the signal strength at a given temperature and thus makes the specific detection of Streptococcus pneumoniae tmRNA more sensitive. No loss of specificity was observed at low temperatures compared to hybridization at 46°C. The effect of the chaperones can be explained by disruption of the strong secondary and tertiary structure of the target RNA by the selective hybridization of helper molecules. The amplification of the hybridization signal strength by chaperones is not necessarily local; we observed increased signal intensities in both local and distant regions of the target molecule. Conclusions The sensitivity of the detection of tmRNA at low temperature can be increased by chaperone oligonucleotides. Due to the complexity of RNA secondary and tertiary structures the effect of any individual chaperone is currently not predictable.
- Subjects :
- Microarray
lcsh:Biotechnology
Molecular Sequence Data
Oligonucleotides
Sensitivity and Specificity
chemistry.chemical_compound
lcsh:TP248.13-248.65
Research article
Molecule
Oligonucleotide Array Sequence Analysis
Base Sequence
biology
Oligonucleotide
Temperature
RNA
Molecular biology
Protein tertiary structure
RNA, Bacterial
Streptococcus pneumoniae
chemistry
Chaperone (protein)
biology.protein
Biophysics
Nucleic Acid Conformation
DNA microarray
DNA
Biotechnology
Subjects
Details
- Language :
- English
- ISSN :
- 14726750
- Volume :
- 10
- Issue :
- 1
- Database :
- OpenAIRE
- Journal :
- BMC Biotechnology
- Accession number :
- edsair.doi.dedup.....480df587e2905c0998424faff0b56bc6
- Full Text :
- https://doi.org/10.1186/1472-6750-10-34