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Transcriptome Studies in Trypanosoma cruzi Using RNA-seq

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Book cover T. cruzi Infection

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1955))

Abstract

RNA-seq is a powerful method to study in detail transcriptome changes in defined conditions, providing enormous amount of information on RNA stability and gene regulation. In this chapter, we describe a directional and a nondirectional library preparation protocol for RNA-seq in Trypanosoma cruzi, as well as a pipeline for bioinformatic analysis, which includes read trimming, alignment to a reference genome, and differential expression.

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Author information

Authors and Affiliations

  1. Laboratory of Host Pathogen Interactions-UBM, Institut Pasteur de Montevideo, Montevideo, Uruguay

    Gonzalo Greif, Luisa Berná, Florencia Díaz-Viraqué & Carlos Robello

  2. Departamento de Bioquímica, Facultad de Medicina-UDELAR, Montevideo, Uruguay

    Carlos Robello

Authors
  1. Gonzalo Greif
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  2. Luisa Berná
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  3. Florencia Díaz-Viraqué
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  4. Carlos Robello
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Corresponding author

Correspondence to Carlos Robello .

Editor information

Editors and Affiliations

  1. INGEBI-CONICET, Buenos Aires, Argentina

    Karina Andrea Gómez

  2. UNSAM-CONICET, IIB-INTECH, San Martin, Buenos Aires, Argentina

    Carlos Andrés Buscaglia

1 Electronic Supplementary Material

Supplementary Material 1

Transcripts abundance quantification using Erange (PDF 228 kb)

Supplementary Material 2

DESeq pipeline (DOCX 14 kb)

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Greif, G., Berná, L., Díaz-Viraqué, F., Robello, C. (2019). Transcriptome Studies in Trypanosoma cruzi Using RNA-seq. In: Gómez, K., Buscaglia, C. (eds) T. cruzi Infection. Methods in Molecular Biology, vol 1955. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-9148-8_3

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  • DOI: https://doi.org/10.1007/978-1-4939-9148-8_3

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-9147-1

  • Online ISBN: 978-1-4939-9148-8

  • eBook Packages: Springer Protocols

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