Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes
Stohr K, Hafner B, Nolte O, Wolfrum J, Sauer M, Herten DP (2005)
ANALYTICAL CHEMISTRY 77(22): 7195-7203.
Zeitschriftenaufsatz
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Autor*in
Stohr, K;
Hafner, B;
Nolte, O;
Wolfrum, J;
Sauer, MarkusUniBi;
Herten, DP
Einrichtung
Abstract / Bemerkung
Due to growing problems with new emerging pathogens, cost-effective and manageable methods for their accurate identification in routine diagnostics are urgently required. Of particular importance is the genus Mycobacterium with its more than 100 species. Identification of these species is hampered by their slow growth in the laboratory and by the obligate need for DNA sequence analysis. To provide a fast and reliable diagnostic tool, we developed a novel approach using fluorescently labeled DNA hairpin structures (smart probes) for selective and sensitive detection of mycobacterial 16S rDNA PCR amplicons in homogeneous and heterogeneous assays. Smart probes are singly labeled hairpin-shaped oligonucleotides beating a fluorescent dye at the 5'-end, which is quenched by guanosine residues in the complementary stem. Upon hybridization to target sequences, a conformational change occurs reflected in an increase in fluorescence intensity. Using optimized parameters for hybridization experiments we established a reliable method for the specific detection of Mycobacterium tuberculosis (M. tuberculosis complex) and Mycobacterium xenopi (member of the atypical mycobacteria) with a detection sensitivity of similar to 2 x 10(-8) M in homogeneous solution. The specificity of the smart probes designed is demonstrated by discrimination of M. tuberculosis and M. xenopi against 15 of the most frequently isolated mycobacterial species in a single assay. In combination with a microsphere-based heterogeneous assay format, the technique opens new avenues for the detection of pathogen-specific DNA sequences with hitherto unsurpassed sensitivity.
Erscheinungsjahr
2005
Zeitschriftentitel
ANALYTICAL CHEMISTRY
Band
77
Ausgabe
22
Seite(n)
7195-7203
ISSN
0003-2700
eISSN
1520-6882
Page URI
https://pub.uni-bielefeld.de/record/1601447
Zitieren
Stohr K, Hafner B, Nolte O, Wolfrum J, Sauer M, Herten DP. Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes. ANALYTICAL CHEMISTRY. 2005;77(22):7195-7203.
Stohr, K., Hafner, B., Nolte, O., Wolfrum, J., Sauer, M., & Herten, D. P. (2005). Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes. ANALYTICAL CHEMISTRY, 77(22), 7195-7203. https://doi.org/10.1021/ac051447z
Stohr, K, Hafner, B, Nolte, O, Wolfrum, J, Sauer, Markus, and Herten, DP. 2005. “Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes”. ANALYTICAL CHEMISTRY 77 (22): 7195-7203.
Stohr, K., Hafner, B., Nolte, O., Wolfrum, J., Sauer, M., and Herten, D. P. (2005). Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes. ANALYTICAL CHEMISTRY 77, 7195-7203.
Stohr, K., et al., 2005. Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes. ANALYTICAL CHEMISTRY, 77(22), p 7195-7203.
K. Stohr, et al., “Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes”, ANALYTICAL CHEMISTRY, vol. 77, 2005, pp. 7195-7203.
Stohr, K., Hafner, B., Nolte, O., Wolfrum, J., Sauer, M., Herten, D.P.: Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes. ANALYTICAL CHEMISTRY. 77, 7195-7203 (2005).
Stohr, K, Hafner, B, Nolte, O, Wolfrum, J, Sauer, Markus, and Herten, DP. “Species-specific identification of mycobacterial 16S rRNA PCR amplicons using smart probes”. ANALYTICAL CHEMISTRY 77.22 (2005): 7195-7203.
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PMID: 30904962
Design and Characterization of a Singly Labeled Fluorescent Smart Probe for In Vitro Detection of miR-21.
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PMID: 28946749
Oladepo SA., Appl Spectrosc 72(1), 2018
PMID: 28946749
Detection of low-abundance point mutations by competitive strand assisted endonuclease IV signal amplification system.
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PMID: 29058299
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PMID: 29058299
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PMID: 27045206
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PMID: 27045206
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PMID: 27869723
Liu H, Ma L, Ma C, Du J, Wang M, Wang K., Sensors (Basel) 16(11), 2016
PMID: 27869723
Enhanced nucleic acid amplification with blood in situ by wire-guided droplet manipulation (WDM).
Harshman DK, Reyes R, Park TS, You DJ, Song JY, Yoon JY., Biosens Bioelectron 53(), 2014
PMID: 24140832
Harshman DK, Reyes R, Park TS, You DJ, Song JY, Yoon JY., Biosens Bioelectron 53(), 2014
PMID: 24140832
Rapid pathogen detection with bacterial-assembled magnetic mesoporous silica.
Lee SY, Lee J, Lee HS, Chang JH., Biosens Bioelectron 53(), 2014
PMID: 24135543
Lee SY, Lee J, Lee HS, Chang JH., Biosens Bioelectron 53(), 2014
PMID: 24135543
Intermolecular G-quadruplex structure-based fluorescent DNA detection system.
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PMID: 22981412
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PMID: 22981412
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PMID: 23441594
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PMID: 23790300
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PMID: 22541012
El-Yazbi AF, Loppnow GR., Anal Chim Acta 726(), 2012
PMID: 22541012
Nucleic acid fluorescent probes for biological sensing.
Su X, Xiao X, Zhang C, Zhao M., Appl Spectrosc 66(11), 2012
PMID: 23146180
Su X, Xiao X, Zhang C, Zhao M., Appl Spectrosc 66(11), 2012
PMID: 23146180
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PMID: 20875730
Song C, Zhang C, Zhao M., Biosens Bioelectron 26(5), 2011
PMID: 20875730
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PMID: 19960557
Lymperopoulos K, Kiel A, Seefeld A, Stöhr K, Herten DP., Chemphyschem 11(1), 2010
PMID: 19960557
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PMID: 17391789
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