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9780471490081

Functional Analysis of Bacterial Genes A Practical Manual

by ; ;
  • ISBN13:

    9780471490081

  • ISBN10:

    0471490083

  • Edition: 1st
  • Format: Paperback
  • Copyright: 2001-02-08
  • Publisher: WILEY

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Summary

Functional Analysis of Bacterial Genes: A Practical Manual summarises the principles and the key methods used to analyse the function of genes in bacteria. Written by members of the Bacillus subtilis Functional Analysis Consortium, this book provides a guide to the many approaches for the systematic analysis of gene function. Features include: * In-depth discussion of the theory and application of the methods * A step-by-step practical guide to each method * Experimental examples to indicate expected results * Contact information for suppliers and resource centres Written by internationally recognised authors, Functional Analysis of Bacterial Genes: A Practical Manual will be a valuable resource to researchers and technicians using functional analysis for many bacterial species, whether in the academic departments of microbiology or genetics, the biotechnology, biomedicine or pharmaceutical industries, or other centres of genomics and bioinformatics. "This volume, and the pioneering effort it represents, will be of interest not only to those of us who are specialists in B. subtilis but to all microbiologists and genome scientists who face the formidable task of uncovering the functions of the myriad uncharacterised genes that are emerging from large-scale sequencing." - Richard Losick , The Biological Laboratories, Harvard University, Cambridge, Massachusetts, USA

Author Biography

<B>Wolfgang Schumann</B>, Institute of Genetics, University of Bayreuth, Germany <BR> <B>S. Dusko Erhlich</B>, Laboratoire de G&eacute;n&eacute;tique Microbienne, INRA, Jouy-en-Josas, France <BR> <B>Naotake Ogasawara</B>, Graduate School of Biological Sciences, NAIST, Ikoma, Japan

Table of Contents

List of Contributors
ix
Foreword xix
Preface xxi
Safety xxv
Aims of the Functional Analysis Project
1(4)
S. Dusko Ehrlich
In silico Genome Analysis
5(16)
Eduardo Rocha
Ivan Moszer
Maude Klaerr-Blanchard
Agnieszka Sekowska
Claudine Medigue
Alain Viari
Antoine Danchin
Inactivation of Bacillus subtilis Genes Without Known Functions
21(4)
Valerie Vagner
Etienne Dervyn
S. Dusko Ehrlich
Analysis of Essential Genes
25(8)
Etienne Dervyn
S. Dusko Ehrlich
Transcriptional Analysis of Large Regions of the Bacterial Genome
33(12)
Rafael P. Mellado
Useful Methods for Transcriptional Analysis
37(4)
Rafael P. Mellado
Northern Blot Analysis with non-RI Detection Systems
41(4)
Hiroki Yamamoto
Kei Asai
Kazuo Kobayashi
Micado, an Integrative Database Dedicated to the Functional Analysis of Bacillus subtilis and Microbial Genomics
45(18)
Franck Samson
Veronique Biaudet-Brunaud
Shahinaz Gas
Etienne Dervyn
Gabriel Gallezot
Sandrine Duchet
S. Dusko Ehrilich
Philippe Bessieres
Phenotype Responses and Reporter Gene Activity from the Systematic Functional Analysis of Bacillus subtilis Unknown Genes
53(10)
Veronique Biaudet-Brunaud
Franck Samson
Shahinaz Gas
Etienne Dervyn
Gabriel Gallezot
Sandrine Duchet
S. Dusko Ehrlich
Philippe Bessieres
The Contribution of the EC Consortium to the Two-dimensional Protein Index of Bacillus subtilis
63(12)
J. Bernhardt
K. Buttner
J. Y. Coppee
C. Lelong
N. Ogasawara
C. Scharf
V. Vagner
R. Schmid
U. Volker
M. Hecker
Whole-Cell Fingerprinting - Pyrolysis Mass Spectrometry
75(2)
Zoltan Pragai
Alan C. Ward
Colin R. Harwood
Metabolism of Small Molecules and Inorganics
77(18)
Hans Henrik Saxild
Per Nygaard
Screening for Genes Involved in Nucleotide and Nitrogen Metabolism
79(8)
Hans Henrik Saxild
Bo Greve
Per Nygaard
Screening for Growth and lacZ Reporter Gene Induction with Metal Ions and Chelators, Amino Acid Analogs, Antibiotics, Inhibitors of Oxidative Phosphorylation and Miscellaneous Stress Factors
87(8)
Marie-Francoise Hullo
Agnieszka Sekowska
Elena Presecan-Siedel
Jean-Yves Coppee
Isabelle Martin-Verstraete
Philippe Glaser
Antoine Danchin
Nucleotide Metabolism
95(6)
Hans Henrik Saxild
Per Nygaard
Utilization of Small Carbon-containing Molecules by Bacillus subtilis
101(10)
Sabine Fillinger
Dominique Le Coq
Stephane Aymerich
Screening for Genes Involved in the Metabolism of Small Carbon-containing Molecules
105(6)
Sabine Fillinger
Dominique Le Coq
Stephane Aymerich
Nitrogen Sources
111(6)
Michel Debarbouille
Rozenn Gardan
Maryvonne Arnaud
Georges Rapoport
Induction or Repression by Nitrogen Sources
115(2)
Rozenn Gardan
Maryvonne Arnaud
Denis Robichon
Michel Debarbouille
Glucose Regulation in Bacillus subtilis
117(6)
Isabelle Martin-Verstraete
Maryvonne Arnaud
Georges Rapoport
Catabolite Repression by Glucose
121(2)
Maryvonne Arnaud
Rozenn Gardan
Denis Robichon
Cell Processes and Macromolecule Metabolism: a Quest for Genes Involved in Genetic Competence, and DNA Recombination and Repair
123(14)
Rob Meima
Caroline Eschevins
Sierd Bron
Cell Processes and Macromolecule Metabolism: Methods for the Selection of Mutants in Genetic Competence, DNA Recombination and Repair and Protein Secretion
131(6)
Rob Meima
Caroline Eschevins
Sierd Bron
Molecular Tools for the Identification of Mutations Affecting Protein Secretion
137(12)
Rob Meima
Pertti Koski
Caroline Eschevins
Matti Sarvas
Sierd Bron
Screening for Mutants Defective in Secretion
143(6)
Pertti Koski
Matti Sarvas
Genes Affecting Motility
149(8)
Alessandra M. Albertini
Alessandro Galizzi
Screening for Motility
155(2)
Alessandra M. Albertini
Alessandro Galizzi
Differentiation of Bacillus subtilis
157(10)
Anne Moir
Fiona Boland
Michele O'Rourke
Simon Foster
Methods for Rapid Screening of Properties: Spore Resistance and Germination
163(4)
Anne Moir
Fiona Boland
Michele O'Rourke
Simon Foster
Genes Affecting the Cell Envelope
167(14)
Zoltan Pragai
Maryam Lahooti
Colin R. Harwood
Analysis of Cell Envelope Components
175(6)
Zoltan Pragai
Maryam Lahooti
Colin R. Harwood
Peptidoglycan Structure and Structural Determination in Vegetative Cells of Bacillus subtilis
181(8)
Abdelmadjid Atrih
Gavin J. Horsburgh
Simon J. Foster
Cell Cycle Gene Analysis
189(12)
Simone J. Seror
Jeffery Errington
Identification and Analysis of Cell Cycle Genes
197(4)
Anne Masson
Francoise Vannier
Josef Seegers
Simone J. Seror
Endospore Formation
201(10)
Jeffery Errington
Isolation and Characterization of Genes Affecting Sporulation or the Cell Cycle
207(4)
Joy P. Rawlins
Helena B. Thomaides
Rut Carballido-Lopez
Jeffery Errington
Selection and Characterization of Genes Affecting Germination
211(4)
Junichi Sekiguchi
Tatsuya Fukushima
Shu Ishikawa
The Oxidative Stress Response
215(16)
Elizabeth Scanlan
Michael Hecker
Kevin M. Devine
Screening for Increased Sensitivity or Resistance and Level of lacZ Reporter Gene Expression in Response to the Oxidizing Agents Hydrogen Peroxide and Methyl Viologen
227(4)
Elizabeth Scanlan
Mary O'Reilly
Kasper Krogh Andersen
David Noone
Kevin M. Devine
The Osmotic Shock Response
231(6)
Ulrich Zuber
Salt Stress
235(2)
Maryvonne Arnaud
Michel Debarbouille
Phosphate Regulation
237(14)
Maryam Lahooti
Zoltan Pragai
Colin R. Harwood
Screening for Mutants Affected in their Response to Phosphate
245(6)
Zoltan Pragai
Colin R. Harwood
The Heat Shock Response
251(12)
Wolfgang Schumann
Michael Hecker
The Cold Shock Response
263(8)
Wolfgang Schumann
pH-Inducible Genes
271(12)
Wolfgang Schumann
Analysis of the Mutant Collection for Defects in their Temperature and pH Shock Response
277(4)
Tanja Ohanjan
Wolfgang Schumann
Screening for Growth and lacZ Reporter Gene Induction or Repression under Glucose and Phosphate Starvation and under Heat Oxidative and Osmotic Stress
281(2)
Ulrich Zuber
Michael Hecker
List of Bacillus subtilis Unknown Genes with a Phenotype Determined by the Functional Analysis Project
283(10)
Veronique Biaudet-Brunaud
Franck Samson
Shahinaz Gas
Etienne Dervyn
Gabriel Gallezot
Sandrine Duchet
S. Dusko Ehrlich
Philippe Bessieres
List of Bacillus subtilis Genes of Known Function
293(34)
Ivan Moszer
Antoine Danchin
Appendix 1 List of Bacillus subtilis Mutants Constructed by the European Functional Analysis Project 327(16)
Appendix 2 List of Bacillus subtilis Mutants Constructed by the Japanese Functional Analysis Project 343(12)
Appendix 3 List of Selected Suppliers 355(4)
Appendix 4 Glossary 359(8)
Index 367

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