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Parasite genomics : methods and protocols

Parasite genomics : methods and protocols

Material type
Personal Author
de Pablos, Luis M. Sotillo, Javier.
Title Statement
Parasite genomics : methods and protocols / edited by Luis M. de Pablos, Javier Sotillo.
Publication, Distribution, etc
New York, NY :   Humana Press,   c2021.  
Physical Medium
xi, 336 p. : ill. (chiefly col.) ; 27 cm.
Series Statement
Methods in molecular biology,1064-3745 ; 2369
Bibliography, Etc. Note
Includes bibliographical references and index.
Subject Added Entry-Topical Term
Parasites --Genetics --Laboratory manuals. Parasitology --Laboratory manuals.
000 00000nam u2200205 a 4500
001 000046095587
005 20211012095745
008 211012s2021 nyua b 001 0 eng d
020 ▼a 9781071616802
040 ▼a 211009 ▼c 211009 ▼d 211009
082 0 4 ▼a 616.96 ▼2 23
084 ▼a 616.96 ▼2 DDCK
090 ▼a 616.96 ▼b P2236
245 0 0 ▼a Parasite genomics : ▼b methods and protocols / ▼c edited by Luis M. de Pablos, Javier Sotillo.
260 ▼a New York, NY : ▼b Humana Press, ▼c c2021.
300 ▼a xi, 336 p. : ▼b ill. (chiefly col.) ; ▼c 27 cm.
490 1 ▼a Methods in molecular biology, ▼x 1064-3745 ; ▼v 2369
490 1 ▼a Springer protocols
504 ▼a Includes bibliographical references and index.
650 0 ▼a Parasites ▼x Genetics ▼v Laboratory manuals.
650 0 ▼a Parasitology ▼v Laboratory manuals.
700 1 ▼a de Pablos, Luis M.
700 1 ▼a Sotillo, Javier.
830 0 ▼a Methods in molecular biology ; ▼v 2369.
830 0 ▼a Springer protocols.
945 ▼a KLPA

Holdings Information

No. Location Call Number Accession No. Availability Due Date Make a Reservation Service
No. 1 Location Science & Engineering Library/Sci-Info(Stacks2)/ Call Number 616.96 P2236 Accession No. 521006126 Availability Available Due Date Make a Reservation Service B M

Contents information

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 Diaz-Viraque, Gonzalo Greif, Luisa Berna, 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. Koester, 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

Nuria Casas-Vila, Anastasia K. Pickford, Harvie P. Portugaliza, Elisabet Tinto-Font, and Alfred Cortes

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 Gonzalez, Elena Sevilla, Miguel Fernandez-Garcia, Alejandro Sanchez-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 Fernandez-Garcia, Alejandro Sanchez-Flores, Luis Miguel Gonzalez, Coral Barbas, M Fernanda Rey-Stolle, Elena Sevilla, Antonia Garcia, 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 Cortes

Part IV: Genomics of Parasite-Derived Extracellular Vesicles

16. Methods for the Isolation and Study of Exovesicle DNA from Trypanosomatid Parasites

Lina Maria 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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