Skip to main content
SpringerLink
Log in
Book cover

Parasite Genomics

Methods and Protocols

  • Book
  • © 2021

Overview

Editors:
  1. Luis M. de Pablos

    1. Departamento de Parasitologia, Universidad de Granada, Granada, Spain

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  2. Javier Sotillo

    1. Laboratorio de Referencia e Investigación en Parasitología, Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda, Spain

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge techniques
  • Provides step-by-step detail essential for reproducible results
  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2369)

This is a preview of subscription content, log in via an institution to check access.

Access this book

Log in via an institution
eBook USD 109.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book USD 139.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book USD 219.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Other ways to access

Licence this eBook for your library

Institutional subscriptions

Table of contents (17 protocols)

  1. Front Matter

    Pages i-xi
    Download chapter PDF

  2. Novel Sequencing and Bioinformatic Pipelines for the Study of Parasite Genomes

    1. Front Matter

      Pages 1-1
      Download chapter PDF

    2. Nanopore Long Read DNA Sequencing of Protozoan Parasites: Hybrid Genome Assembly of Trypanosoma cruzi

      • Florencia Díaz-Viraqué, Gonzalo Greif, Luisa Berná, Carlos Robello
      Pages 3-13

    3. Chromosomes Conformation Capture Coupled with Next-Generation Sequencing (Hi-C) in Plasmodium falciparum

      • Mohit Kumar Gupta, Todd Lenz, Karine G. Le Roch
      Pages 15-25

    4. Sequencing and Reconstructing Helminth Mitochondrial Genomes Directly from Genomic Next-Generation Sequencing Data

      • Nikola Palevich, Paul Haydon Maclean
      Pages 27-40

    5. Automated Phylogenetic Analysis Using Best Reciprocal BLAST

      • Erin R. Butterfield, James C. Abbott, Mark C. Field
      Pages 41-63

  3. Diagnostic Approaches Using Genomic Tools

    1. Front Matter

      Pages 65-65
      Download chapter PDF

    2. An Illumina MiSeq-Based Amplicon Sequencing Method for the Detection of Mixed Parasite Infections Using the Blastocystis SSU rRNA Gene as an Example

      • Jenny G. Maloney, Nadja S. George, Aleksey Molokin, Monica Santin
      Pages 67-82

    3. Giardia duodenalis: Detection by Quantitative Real-Time PCR and Molecular Diversity

      • Alejandro Dashti, Pamela C. Köster, David Carmena
      Pages 83-97

  4. Host-Parasite Interactions: Deciphering Gene Function and Molecular Processes in Parasites

    1. Front Matter

      Pages 99-99
      Download chapter PDF

    2. Conditional Gene Deletion in Mammalian and Mosquito Stages of Plasmodium berghei Using Dimerizable Cre Recombinase

      • Priyanka Fernandes, Manon Loubens, Olivier Silvie, Sylvie Briquet
      Pages 101-120

    3. Coupling Auxin-Inducible Degron System with Ultrastructure Expansion Microscopy to Accelerate the Discovery of Gene Function in Toxoplasma gondii

      • Nicolas Dos Santos Pacheco, Dominique Soldati-Favre
      Pages 121-137

    4. Genome-Wide Analysis of RNA–Protein Interactions in Plasmodium falciparum Using eCLIP-Seq

      • Thomas Hollin, Steven Abel, Karine G. Le Roch
      Pages 139-164

    5. Transcriptional Analysis of Tightly Synchronized Plasmodium falciparum Intraerythrocytic Stages by RT-qPCR

      • Núria Casas-Vila, Anastasia K. Pickford, Harvie P. Portugaliza, Elisabet Tintó-Font, Alfred Cortés
      Pages 165-185

    6. Analysis of the Interaction Between Plasmodium falciparum-Infected Erythrocytes and Human Endothelial Cells Using a Laminar Flow System, Bioinformatic Tracking and Transcriptome Analysis

      • Yifan Wu, Philip Bouws, Stephan Lorenzen, Iris Bruchhaus, Nahla Galal Metwally
      Pages 187-197

    7. Integration of Genomic and Transcriptomic Data to Elucidate Molecular Processes in Babesia divergens

      • Luis Miguel Gonzalez, Elena Sevilla, Miguel Fernández-García, Alejandro Sanchez-Flores, Estrella Montero
      Pages 199-215

    8. Integration of Functional Genomic, Transcriptomic, and Metabolomic Data to Identify Key Features in Genomic Expression, Metabolites, and Metabolic Pathways of Babesia divergens

      • Miguel Fernández-Garcia, Alejandro Sanchez-Flores, Luis Miguel Gonzalez, Coral Barbas, Mª. Fernanda Rey-Stolle, Elena Sevilla et al.
      Pages 217-249

    9. Genome Analysis of Programmed DNA Elimination in Parasitic Nematodes

      • Jianbin Wang
      Pages 251-261

    10. Helminth Microbiota Profiling Using Bacterial 16S rRNA Gene Amplicon Sequencing: From Sampling to Sequence Data Mining

      • Fabio Formenti, Gabriel Rinaldi, Cinzia Cantacessi, Alba Cortés
      Pages 263-298

  5. Genomics of Parasite-Derived Extracellular Vesicles

    1. Front Matter

      Pages 299-299
      Download chapter PDF
Back to top

Keywords

About this book

This detailed book provides a comprehensive series of innovative research techniques and methodologies applied to the parasite genomics research area, all applying different approaches to analyzing parasite genomes and furthering the study of genetic complexity and the mechanisms of regulation. Beginning with chapters on novel sequencing and the bioinformatics pipeline, the volume continues by exploring diagnostic approaches using genomic tools, host-parasite interactions, as well as the genomics of parasite-derived extracellular vesicles. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, Parasite Genomics: Methods and Protocols creates a detailed picture of genomic approaches for researchers seeking a better understanding of characterizing parasite nucleic acid content.

Editors and Affiliations

  • Departamento de Parasitologia, Universidad de Granada, Granada, Spain

    Luis M. de Pablos

  • Laboratorio de Referencia e Investigación en Parasitología, Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda, Spain

    Javier Sotillo

Bibliographic Information

  • Book Title: Parasite Genomics

  • Book Subtitle: Methods and Protocols

  • Editors: Luis M. de Pablos, Javier Sotillo

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-1681-9

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature 2021

  • Hardcover ISBN: 978-1-0716-1680-2Published: 28 July 2021

  • Softcover ISBN: 978-1-0716-1683-3Published: 29 July 2022

  • eBook ISBN: 978-1-0716-1681-9Published: 27 July 2021

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XI, 336

  • Number of Illustrations: 12 b/w illustrations, 25 illustrations in colour

  • Topics: Parasitology, Microbial Genetics and Genomics, Genetics and Genomics

Publish with us

Policies and ethics

Back to top

Search

Navigation