Genomics, Proteomics, and Clincial Bacteriology

by Woodford, Neil; Johnson, Alan P.

• ISBN13: 9781588292186
• ISBN10: 1588292185
• Format: Hardcover
• Copyright: 2004-04-01
• Publisher: Humana Pr Inc

Summary

An accessible introduction to how genomics has and will provide novel methods for bacterial investigation and advance our understanding and knowledge of bacterial pathogenicity. The authors critically evaluate the applications of genomics to diagnostic bacteriology, highlighting both current and likely future uses, describing real-time PCR methods, and outlining the promise of microarrays in clinical bacteriology. Their discussion examines in detail genomic approaches to antibacterial discovery, the nature of pathogenicity, the discovery of new pathogens, the exploration of the concept of clonality in bacteria, and bacterial taxonomics.

Table of Contents

Preface	v
Contributors	ix
PART I PRINCIPLES OF BACTERIAL GENOMICS
1 Bacterial Genomes for the Masses: Relevance to the Clinical Laboratory
Mark J. Pallen	3	(14)
2 Public Databases: Retrieving and Manipulating Sequences for Beginners
Neil Woodford	17	(12)
3 Genome Sequencing and Annotation: An Overview
Makoto Kuroda and Keiichi Hiramatsu	29	(18)
4 Comparative Genomics: Digging for Data
Matthew B. Avison	47	(24)
5 Genome Plasticity: Insertion Sequence Elements, Transposons and Integrons, and DNA Rearrangement
Peter M. Bennett	71	(44)
6 Exploring and Exploiting Bacterial Proteomes
Stuart J. Cordwell	115	(24)
PART II APPLICATION OF GENOMICS TO DIAGNOSTIC BACTERIOLOGY
7 Molecular Diagnostics: Current Opinions
B. Cherie Millar and John E. Moore	139	(28)
8 Molecular Diagnostics: Future Probe-Based Strategies
Peter Marsh and Donald L.N. Cardy	167	(24)
9 Real-Time PCR
Nicholas A. Saunders	191	(22)
10 Microarrays for Bacterial Typing: Realistic Goal or Holy Grail?
Carola Van Ijperen and Nicholas A. Saunders	213	(18)
PART III INTERROGATING BACTERIAL GENOMES
11 Genomic Approaches to Antibacterial Discovery
David J. Payne, Michael N. Gwynn, David J. Holmes, and Marty Rosenberg	231	(30)
12 Using the Genome to Understand Pathogenicity
Dawn Field, Jennifer Hughes, and E. Richard Moxon	261	(28)
13 Identification of Novel Pathogenicity Genes by PCR Signature-Tagged Mutagenesis and Related Technologies
Dario E. Lehoux, François Sanschagrin, Irena Kukavica-Ibrulj, Eric Potvin, and Roger C. Levesque	289	(16)
14 Discovering New Pathogens: Culture-Resistant Bacteria
Andrew J. Lawson	305	(18)
15 Exploring the Concept of Clonality in Bacteria
Brian G. Spratt	323	(30)
16 Bacterial Taxonomics: Finding the Wood Through the Phylogenetic Trees
Robert J. Owen	353	(32)
Index	385