Parasite genomics protocols / edited by Sara E. Melville.

Format:

Book

Contributor:

Melville, Sara E.

Series:

Methods in molecular biology (Clifton, N.J.) ; v. 270.

Methods in molecular biology ; v. 270

Language:

English

Subjects (All):

Parasites--Molecular genetics--Methodology.

Parasites.

Genomics--methods.

Parasites--genetics.

Genetic Techniques.

Molecular genetics.

Methodology.

Medical Subjects:

Genomics--methods.

Parasites--genetics.

Genetic Techniques.

Physical Description:

xiv, 452 pages : illustrations (some color) ; 24 cm.

Place of Publication:

Totowa, N.J. : Humana Press, [2004]

Summary:

Pioneering bench researchers describe in detail the cutting-edge techniques they have developed for analyzing the genomes and gene products in a diverse range of protozoan and metazoan parasites. These readily reproducible techniques can be used in genomic, functional genomic, and post-genomic studies and include transfection methods and vectors for several protozoan parasites, global analysis using microarrays, gene ablation using RNA interference, gene knockout, mutagenesis, and chromosome manipulation. Some of the protocols require DNA sequence data, whereas others were developed independently of whole-genome sequence data. The protocols presented follow the successful Methods in Molecular Biology??? series format, each one offering step-by-step laboratory instructions, an introduction outlining the principle behind the technique, lists of equipment and reagents, and tips on troubleshooting and the avoidance of known pitfalls.

Contents:

Sequencing strategies for parasite genomes / Daniella Bartholomeu and Najib M. El-Sayed

Annotation of parasite genomes / Matthew Berriman and Midori Harris

Parasite genome databases and web-based resources / Christiane Hertz-Fowler and Neil Hall

Expressed sequence tags: medium-throughput protocols / Claire Whitton, Jennifer Daub, Marian Thompson, and Mark Blaxter

Expressed sequence tags: analysis and annotation / John Parkinson and Mark Blaxter

Positive selection scanning of parasite DNA sequences

Winston A. Hide and Raphael D. Isokpehi

Race and rage cloning in parasitic microbial eukaryotes / Bryony A. P. Williams and Robert P. Hirt

Amplified (restriction) fragment length polymorphism (AFLP) analysis / Daniel K. Masiga and C. Michael R. Turner

Minisatellites and MVR-PCR for the individual identification of parasite isolates / Annette MacLeod

Analysis of differentially expressed parasite genes and proteins using transcriptomics and proteomics / Daniel C. Gare

Gene expression studies using self-fabricated parasite cDNA microarrays / Karl F. Hoffmann and Jennifer M. Fitzpatrick

DNA content analysis on microarrays / Upinder Singh, Preetam H. Shah, and Ryan C. MacFarlane

Typing single nucleotide polymorphisms in toxoplasma gondii by allele-specific primer extension and microarray detection / Chunlei Su, Christian Hott, Bernard H. Brownstein, and L. David Sibley

Transfection of the human malaria parasite plasmodium falciparum / Brendan S. Crabb, Melanie Rug, Tim-Wolf Gilberger, Jennifer K. Thompson, Tony Triglia, Alexander G. Maier, and Alan F. Cowman

A PCR-based method for gene deletion and protein tagging in trypanosoma brucei / George K. Arhin, Shuiyuan Shen, Elisabetta Ullu, and Christian Tschudi

Analysis of gene function in trypanosoma brucei using RNA interference / Appolinaire Djikeng, Shuiyuan Shen, Christian Tschudi, and Elisabetta Ullu

In vitro shuttle mutagenesis using engineered mariner transposons / Kelly A. Robinson, Sophie Goyard, and Stephen M. Beverley

Random mutagenesis strategies for construction of large and diverse clone libraries of mutated DNA fragments / Sudsanguan Chusacultanachai and Yongyuth Yuthavong

Separation, digestion and cloning of intact parasite chromosomes embedded in agarose / Vanessa Leech, Michael A. Quail, and Sara E. Melville

Chromosome fragmentation in leishmania / Pascal Dubessay, Christine Blaineau, Patrick Bastien, and Michel Pagès

FISH mapping for helminth genomes / Hirohisa Hirai and Yuriko Hirai

Fiber-FISH: fluorescence in situ hybridization on stretched DNA / Klaus Ersfeld

Yeast two-hybrid assay for studying protein-protein interactions / Ahmed Osman

From genomes to vaccines for leishmaniasis / Carmel B. Stober.

Notes:

Includes bibliographical references and index.

ISBN:

158829062X

1592597939

OCLC:

53458466