Ligase detection reaction (LDR) and universal array (Zip code): Application to DNA genotyping

G. De Bellis, B. Castiglioni, R. Bordoni, A. Mezzelani, E. Rizzi, A. Frosini, E. Busti, C. Consolandi, L. Rossi Bernardi, C. Battaglia

Research output: Contribution to journalArticle

Abstract

The Universal DNA microarray approach has been proposed for setting up several different DNA analysis. Such an approach is based on an arrayed set of oligonucleotides (the zipcode sequences) having common thermodinamic behaviour but being unrelated to any specific DNA sequence under study. This procedure, that can be combined to ligation, extension or minisequencing, requires the design of a set of probes specific for each target sequence (mutations, polymorphism, etc.) appended with complementary ZipCode (cZipCode) sequences. These probes are reacted against a proper target in solution in a multiplexed format using the above mentioned enzymatic reactions. The resulting products, bearing their own cZipCode are addressed to the location on the microarray where the corresponding ZipCode sequence has been spotted. Such an array is therefore "Universal" being unrelated to a specific molecular analysis. Here we present the set up and optimization of this procedure and its application to bacterial discrimination. Four presentations follow demonstrating the flexibility of the Universal array format in detecting pathogens and GMOs, monitoring bacterial diversity and typing SNPs.

Original languageEnglish
Pages (from-to)247-252
Number of pages6
JournalMinerva Biotecnologica
Volume14
Issue number3-4
Publication statusPublished - Dec 2002

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Keywords

  • Oligonucleotide array
  • Sequence analysis

ASJC Scopus subject areas

  • Biotechnology
  • Applied Microbiology and Biotechnology
  • Bioengineering

Cite this

De Bellis, G., Castiglioni, B., Bordoni, R., Mezzelani, A., Rizzi, E., Frosini, A., Busti, E., Consolandi, C., Rossi Bernardi, L., & Battaglia, C. (2002). Ligase detection reaction (LDR) and universal array (Zip code): Application to DNA genotyping. Minerva Biotecnologica, 14(3-4), 247-252.