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Haplotyping a Non-meiotic Diploid Fungal Pathogen Using Induced Aneuploidies and SNP/CGH Microarray Analysis

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Haplotyping

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1551))

Abstract

The generation of haplotype information has recently become very attractive due to its utility for identifying mutations associated with human disease and for the development of personalized medicine. Haplotype information also is crucial for studying recombination mechanisms and genetic diversity, and for analyzing allele-specific gene expression. Classic haplotyping methods require the analysis of hundreds of meiotic progeny. To facilitate haplotyping in the non-meiotic human fungal pathogen Candida albicans, we exploited trisomic heterozygous chromosomes generated via the UAU1 selection strategy. Using this system, we obtained phasing information from allelic biases, detected by SNP/CGH microarray analysis. This strategy has the potential to be applicable to other diploid, asexual Candida species that are important causes of human disease.

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Acknowledgments

We like to thank Mathura A. Thevandavakkam for critical reading of the manuscript. A.F. is supported by a grant from the NIAID 2 R15 AI090633. J.B. is supported by the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) REA grant agreement number 303635; by an European Research Council Advanced Award, number 340087, RAPLODAPT, by grants from the Israel Science foundation (340/13), and by the National Institute of Allergy and Infectious Disease (R01AI075096 and R01AI0624273).

Author information

Authors and Affiliations

  1. Department of Molecular Microbiology & Biotechnology, Tel Aviv University, Ramat Aviv, Israel

    Judith Berman

  2. Department of Biology, Bowdoin College, Brunswick, ME, USA

    Anja Forche

Authors
  1. Judith Berman
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  2. Anja Forche
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Corresponding author

Correspondence to Anja Forche .

Editor information

Editors and Affiliations

  1. Johannes Kepler University Institute of Biophysics, Linz, Austria

    Irene Tiemann-Boege

  2. Vetmeduni Vienna InstitutPopulationsgenetik, Wien, Austria

    Andrea Betancourt

1 Electronic Supplementary Material

Below is the link to the electronic supplementary material.

Table S1

SNP probes for SNP/CGH microarray (adapted from [12])

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Berman, J., Forche, A. (2017). Haplotyping a Non-meiotic Diploid Fungal Pathogen Using Induced Aneuploidies and SNP/CGH Microarray Analysis. In: Tiemann-Boege, I., Betancourt, A. (eds) Haplotyping. Methods in Molecular Biology, vol 1551. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6750-6_7

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  • DOI: https://doi.org/10.1007/978-1-4939-6750-6_7

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6748-3

  • Online ISBN: 978-1-4939-6750-6

  • eBook Packages: Springer Protocols

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