Sequence-Specific End Labeling of Oligonucleotides (SSELO)-Based Microbial Detection

  • Tanja KosticEmail author
  • Levente Bodrossy
Part of the Methods in Molecular Biology book series (MIMB, volume 1918)


The sequence-specific end labeling of oligonucleotides (SSELO) is an alternative labelling approach for the short-oligonucleotide diagnostic microarrays that was firstly described by Rudi and coworkers (ScientificWorldJournal 3:578–584, 2003). SSELO approach is unique in a way that it shifts the specificity determining step from hybridization to labeling, ensuring both high specificity (with careful probe design even single nucleotide polymorphisms (SNPs) can be detected) and sensitivity (detection sensitivity in the range of 0.1% relative abundance has been demonstrated) of the diagnostic system. These features make SSELO approach a perfect choice for the development of microbial diagnostic microarrays, in particular in the frame of foodborne bacterial pathogen detection.

Key words

Diagnostic microarray SSELO Labelling Parallel detection Microbial detection 


  1. 1.
    Schrenzel J, Kostic T, Bodrossy L et al (2009) Introduction to microarray-based detection methods, in: detection of highly dangerous pathogens. Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, pp 1–34CrossRefGoogle Scholar
  2. 2.
    Kostić T, Sessitsch A (2011) Microbial diagnostic microarrays for the detection and typing of food- and water-borne (bacterial) pathogens. Microarrays (Basel) 1:3–24CrossRefGoogle Scholar
  3. 3.
    Rudi K, Treimo J, Nissen H et al (2003) Protocols for 16S rDNA array analyses of microbial communities by sequence-specific labeling of DNA probes. ScientificWorldJournal 3:578–584CrossRefGoogle Scholar
  4. 4.
    Kostić T, Weilharter A, Sessitsch A et al (2005) High-sensitivity, polymerase chain reaction-free detection of microorganisms and their functional genes using 70-mer oligonucleotide diagnostic microarray. Anal Biochem 346:333–335CrossRefGoogle Scholar
  5. 5.
    Kostic T, Weilharter A, Rubino S et al (2007) A microbial diagnostic microarray technique for the sensitive detection and identification of pathogenic bacteria in a background of nonpathogens. Anal Biochem 360:244–254CrossRefGoogle Scholar
  6. 6.
    Kostic T, Bodrossy L (2009) Sequence-specific end-Labeling of oligonucleotides. In: Detection of highly dangerous pathogens. Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim, pp 47–57CrossRefGoogle Scholar
  7. 7.
    Gröger C (2010) Optimization of the AIT pathogen array for a high throughput analysisGoogle Scholar
  8. 8.
    Kostić T, Stessl B, Wagner M et al (2010) Microbial diagnostic microarray for food- and water-borne pathogens. Microb Biotechnol 3:444–454CrossRefGoogle Scholar
  9. 9.
    Yamamoto S, Harayama S (1995) PCR amplification and direct sequencing of gyrB genes with universal primers and their application to the detection and taxonomic analysis of pseudomonas putida strains. Appl Environ Microbiol 61:1104–1109CrossRefGoogle Scholar
  10. 10.
    Franklin K, Lingohr EJ, Yoshida C et al (2011) Rapid Genoserotyping tool for classification of salmonella Serovars. J Clin Microbiol 49:2954–2965CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Bioresources UnitAIT Austrian Institute of TechnologyTulln an der DonauAustria
  2. 2.Environmental Genomics TeamCSIRO Oceans and AtmosphereHobartAustralia

Personalised recommendations