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TitleBioinformatic tools and guidelines for the design of fluorescence in situ hybridization probes
Author(s)Teixeira, Helena
Sousa, Ana L.
Azevedo, Andreia S.
KeywordsProbe design
Bioinformatic tools
Fluorescence in situ hybridization
Nucleic Acid Mimics
Issue date13-Feb-2021
JournalMethods in Molecular Biology
CitationTeixeira, Helena; Sousa, Ana L.; Azevedo, Andreia S., Bioinformatic Tools and Guidelines for the Design of Fluorescence In Situ Hybridization Probes. In Nuno F. Azevedo, Carina Almeida, Fluorescence In-Situ Hybridization (FISH) for Microbial Cells: Methods and Concepts, Vol. Methods in Molecular Biology 2246, Springer US, 2021. ISBN: 978-1-0716-1115-9, 35-50. DOI: 10.1007/978-1-0716-1115-9_3
Abstract(s)Fluorescence in situ hybridization (FISH) is a well-established technique that allows the detection of microorganisms in diverse types of samples (e.g., clinical, food, environmental samples, and biofilm communities). The FISH probe design is an essential step in this technique. For this, two strategies can be used, the manual form based on multiple sequence alignment to identify conserved regions and programs/software specifically developed for the selection of the sequence of the probe. Additionally, databases/software for the theoretical evaluation of the probes in terms of specificity, sensitivity, and thermodynamic parameters (melting temperature and Gibbs free energy change) are used. The purpose of this chapter is to describe the essential steps and guidelines for the design of FISH probes (e.g., DNA and Nucleic Acid Mimic (NAM) probes), and its theoretical evaluation through the application of diverse bioinformatic tools.
TypeBook part
Publisher version
AccessRestricted access (UMinho)
Appears in Collections:CEB - Livros e Capítulos de Livros / Books and Book Chapters

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