Functional Microbial Genomics

✍ Scribed by Brendan Wren, Nick Dorrell (Eds.)

• Publisher: Academic Press
• Year: 2002
• Tongue: English
• Leaves: 410
• Series: Methods in Microbiology 33
• Edition: 1
• Category: Library

✦ Synopsis

Functional Microbial Genomics, edited by two leading experts in the field, provides the researcher with an up-to-date collection of articles on post-genome technologies central to studying the function of microorganisms.Since the release of the first complete genome sequence of a free-living organism in 1995, over 100 microbial genomes have been completely sequenced. The advent of new technologies for post-genomic analyses has allowed the rapid exploitation of this genome sequence information, heralding a golden era in microbial research. Functional Microbial Genomics provides in-depth accounts from scientists working with these new technologies explaining both the techniques and the ways in which they have been applied to the study of gene function in different microbial species.Methods in Microbiology is the most prestigious series devoted to techniques and methodology in the field. Established for over 30 years, Methods in Microbiology will continue to provide you with tried and tested, cutting edge protocols to directly benefit your research. * Bioinformatic approaches to genome sequence analysis Details the design, construction and applications of DNA microarrays Covers advances in bacterial proteome and metagenome analysis Describes functional genomic approaches for novel antibiotic target and vaccine candidate discovery Presents case studies where functional genomic analyses have revolutionized our understanding of model species

✦ Table of Contents

Content:
Contributors
Pages viii-xii

Preface
Pages xiii-xiv

Annotation of microbial genomes Original Research Article
Pages 3-26
Julian Parkhill

From sequence to consequence: In silico hypothesis generation and testing Review Article
Pages 27-48
Mark Pallen

The Atlas visualization of genomewide information Review Article
Pages 49-63
Marie Skovgaard, Lars Juhl Jensen, Carsten Friis, Hans Henrik Stærfeldt, Peder Worning, Søren Brunak, David Ussery

Microarray design for bacterial genomes Review Article
Pages 67-82
Jason Hinds, Adam A. Witney, J. Keith Vass

Glass slide microarrays for bacterial genomes Review Article
Pages 83-99
Jason Hinds, Kenneth G. Laing, Joseph A. Mangan, Philip D. Butcher

Representational difference analysis of cDNA and genome comparisons Review Article
Pages 103-120
Deborah L. Taylor, Aldert Bart, Lucas D. Bowler

Application of DNA microarrays for comparative and evolutionary genomics Original Research Article
Pages 121-136
Nick Dorrell, Olivia L. Champion, Brendan W. Wren

Gene expression during host—pathogen interactions: Approaches to bacterial mRNA extraction and labelling for microarray analysis Original Research Article
Pages 137-151
Joseph A. Mangan, Irene M. Monahan, Philip D. Butcher

High throughput in vivo screens: Signature-tagged mutagenesis Review Article
Pages 153-165
Nicholas West, Philippe Sansonetti, Christoph M. Tang

Further strategies for signature-tagged mutagenesis and the application of oligonucleotide microarrays for the quantification of DNA-tagged strains Review Article
Pages 167-178,IN1-IN7,179-184
Andrey V. Karlyshev, Nick Dorrell, Elizabeth Winzeler, Brendan W. Wren

Advances in bacterial proteome analysis
Pages 187-207
Stuart J. Cordwell

Discovery of protein—protein interaction using two-hybrid systems
Pages 209-238
Amit Patel, Kenneth H. Mellits, Ian F. Connerton

Cloning the metagenome: Culture-independent access to thediversity and functions of the uncultivated microbial world Review Article
Pages 241-255
Jo Handelsman, Mark Liles, David Mann, Christian Riesenfeld, Robert M. Goodman

Reverse vaccinology: From genome to vaccine
Pages 257-270
John L. Telford, Mariagrazia Pizza, Guido Grandi, Rino Rappuoli

Microbial genomics for antibiotic target discovery Review Article
Pages 271-288
Frank Fan, Damien McDevitt

Helicobacter pylori functional genomics Review Article
Pages 291-319
Karen J. Guillemin, Nina R. Salama

Streptomyces coelicolor A3(2): from genome sequence to function Original Research Article
Pages 321-336
Keith F. Chater, Giselda Bucca, Paul Dyson, Kay Fowler, Bertolt Gust, Paul Herron, Andy Hesketh, Graham Hotchkiss, Tobias Kieser, Vassilios Mersinias, Colin P. Smith

Functional analysis of the Bacillus subtilis genome
Pages 337-367
Colin R. Harwood, Anil Wipat, Zoltán Prágai

Plasmodium falciparum DNA microarrays and interpretation of data Review Article
Pages 371-382
Adam A. Witney, Robert M. Anthony, Trevor R. Jones, Daniel J. Carucci

Functional analysis of the Plasmodium falciparum genome using transfection Review Article
Pages 383-396
Alan F. Cowman, Manoj Duraisingh, Rebecca A. O'Donnell, Tony Triglia, Brendan S. Crabb

Chromosome fragmentation as an approach to whole-genome analysis in trypanosomes Review Article
Pages 397-406
John M. Kelly, Samson Obado

Index
Pages 407-414