Overview

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.

Full Product Details

Author:   Luis M. de Pablos ,  Javier Sotillo
Publisher:   Springer-Verlag New York Inc.
Imprint:   Springer-Verlag New York Inc.
Edition:   1st ed. 2021
Volume:   2369
Weight:   0.662kg
ISBN:  

9781071616833

ISBN 10:   1071616838
Pages:   336
Publication Date:   29 July 2022
Audience:   Professional and scholarly ,  Professional & Vocational
Format:   Paperback
Publisher's Status:   Active
Availability:   Manufactured on demand  
We will order this item for you from a manufactured on demand supplier.

Table of Contents

Part I: Novel Sequencing and Bioinformatic Pipelines for the Study of Parasite Genomes   1. Nanopore Long Read DNA Sequencing of Protozoan Parasites: Hybrid Genome Assembly of Trypanosoma cruzi             Florencia Díaz-Viraqué, Gonzalo Greif, Luisa Berná, and Carlos Robello   2. Chromosomes Conformation Capture Coupled with Next Generation Sequencing (Hi-C) in Plasmodium falciparum             Mohit Gupta, Todd Lenz, and Karine G. Le Roch   3. Sequencing and Reconstructing Helminth Mitochondrial Fenomes Directly from Genomic Next-Generation Sequencing Data             Nikola Palevich and Paul Haydon Maclean   4. Automated Phylogenetic Analysis Using Best Reciprocal BLAST             Erin R. Butterfield, James C. Abbott, and Mark C. Field   Part II: Diagnostic Approaches Using Genomic Tools   5. 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, and Monica Santin   6. Giardia duodenalis: Detection by Quantitative Real-Time PCR and Molecular Diversity             Alejandro Dashti, Pamela C. Köster, and David Carmena   Part III: Host-Parasite Interactions: Deciphering Gene Function and Molecular Processes in Parasites   7. Conditional Gene Deletion in Mammalian and Mosquito Stages of Plasmodium berghei Using Dimerizable Cre Recombinase             Priyanka Fernandes, Manon Loubens, Olivier Silvie, and Sylvie Briquet   8. Coupling Auxin-Inducible Degron System with Ultrastructure Expansion Microscopy to Accelerate the Discovery of Gene Function in Toxoplasma gondii             Nicolas Dos Santos Pacheco and Dominique Soldati-Favre   9. Genome-Wide Analysis of RNA-Protein Interactions in Plasmodium falciparum Using eCLIP-Seq             Thomas Hollin, Steven Abel, and Karine G. Le Roch   10. Transcriptional Analysis of Tightly Synchronized Plasmodium falciparum Intraerythrocytic Stages by RT-qPCR             Núria Casas-Vila, Anastasia K. Pickford, Harvie P. Portugaliza, Elisabet Tintó-Font, and Alfred Cortés   11. 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, and Nahla Galal Metwally   12. Integration of Genomic and Transcriptomic Data to Elucidate Molecular Processes in Babesia divergens             Luis Miguel González, Elena Sevilla, Miguel Fernández-García, Alejandro Sánchez-Flores, and Estrella Montero   13. Integration of Functional Genomic, Transcriptomic, and Metabolomic Data to Identify Key Features in Genomic Expression, Metabolites, and Metabolic Pathways of Babesia divergens             Miguel Fernández-García, Alejandro Sanchez-Flores, Luis Miguel González, Coral Barbas, Mª Fernanda Rey-Stolle, Elena Sevilla, Antonia García, and Estrella Montero   14. Genome Analysis of Programmed DNA Elimination in Parasitic Nematodes             Jianbin Wang   15. Helminth Microbiota Profiling Using Bacterial 16S rRNA Gene Amplicon Sequencing: From Sampling to Sequence Data Mining             Fabio Formenti, Gabriel Rinaldi, Cinzia Cantacessi, and Alba Cortés   Part IV: Genomics of Parasite-Derived Extracellular Vesicles   16. Methods for the Isolation and Study of Exovesicle DNA from Trypanosomatid Parasites             Lina María Orrego, Romina Romero, Antonio Osuna, and Luis M. de Pablos   17. Isolation and Analysis of MicroRNAs from Extracellular Vesicles of the Parasitic Model Nematodes Nippostrongylus brasiliensis and Trichuris muris             Ramon M. Eichenberger

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