Evolutionary biology of bacterial and fungal pathogens

670 Pages·2008·11.306 MB·English

by  F Baquero, et al

Evolutionary Biology
of Bacterial and
Fungal Pathogens
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Evolutionary Biology
of Bacterial and
Fungal Pathogens
Edited by
Fernando Baquero
Department of Microbiology
Ramón y Cajal University Hospital and
Laboratory for Microbial Evolution
Center for Astrobiology (CAB-INTA-CSIC)
Madrid, Spain
César Nombela
Department of Microbiology II
School of Pharmacy
Universidad Complutense de Madrid
Madrid, Spain
Gail H. Cassell
Eli Lilly and Company
Indianapolis, Indiana
José A. Gutiérrez-Fuentes
Fundación Lilly
Madrid, Spain
Washington, DC
Address editorial correspondence to ASM Press, 1752 N St., NW, Washington, DC
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Copyright ©2008 ASM Press
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Library of Congress Cataloging-in-Publication Data
Evolutionary biology of bacterial and fungal pathogens / edited by
Fernando Baquero . . . [et al.].
p. ; cm.
Includes bibliographical references and index.
ISBN 978-1-55581-414-4 (alk. paper)
1. Pathogenic bacteria—Evolution. 2. Pathogenic fungi—Evolution.
3. Drug resistance in microorganisms. 4. Evolution (Biology)
I. Baquero, F. (Fernando)
[DNLM: 1. Gram-Negative Bacteria—pathogenicity. 2. Bacterial
Infections—microbiology. 3. Drug Resistance, Microbial. 4. Evolution.
5. Fungi—pathogenicity. 6. Gram-Positive Bacteria—pathogenicity.
QW 131 E93 2007]
QR81.7.E98 2007
616.9'041—dc22
2007023554
10 9 8 7 6 5 4 3 2 1
All rights reserved
Printed in the United States of America
Cover:The cover image illustrates the complex relationships among evolutionary units; circles might represent
hosts, which are linked by orbits of affinity to particualr microbes. These microbes might increase their affinity
for the host from more external orbits, or might be integrated into orbits after crossing host-free spaces.
CONTENTS
Contributors • ix 8. Evolution of Normal Intestinal Microbiota
and Its Pathogenic Implications • 73
Foreword • xv
George T. Macfarlane and Sandra Macfarlane
Julian Davies
Preface • xix 9. Evolution of Bacterial Opportunistic
Pathogens • 85
José Luis Martínez
I. Evolutionary Biology of Microbial-Host
Interactions
10. Multilocus Models of Bacterial Population
Genetics • 93
1. Evolution of Bacterial-Host Interactions:
William P. Hanage, Christophe Fraser,
Virulence and the Immune
Thomas R. Connor, and Brian G. Spratt
Overresponse • 3
Elisa Margolis and Bruce R. Levin
11. A Host View of the Fungal Cell
2. Collective Traits in Pathogenic Wall • 105
Bacteria • 13 Rebeca Alonso-Monge, Elvira Román, Jesús Pla,
Jean-Baptiste André and Minus van Baalen and César Nombela
3. Epidemiological and Evolutionary Dynamics
of Pathogens • 21 II. Evolutionary Genetics of Microbial
Keith A. Crandall and Marcos Pérez-Losada Pathogens
4. Environmental and Social Influences on 12. Genome Architecture and Evolution of
Infectious Diseases • 31 Bacterial Pathogens • 115
Anthony J. McMichael Alex Mira and Ravindra Pushker
5. Human Genome Diversity: a Host Genomic 13. Evolution of Genomic Islands and
Perspective of Host-Pathogen Interactions and Evolution of Pathogenicity • 129
Infectious Diseases • 39 Jörg Hacker
Lluís Quintana-Murci
14. Evolution of Integrons and Evolution of
6. Human Interventions on the Evolution of Antibiotic Resistance • 139
Host-Bacterium Interactions • 51 Didier Mazel
David L. Smith and Ramanan Laxminarayan
15. Evolution of Plasmids and Evolution of
7. Effects of Immune Selection on Population Virulence and Antibiotic-Resistance
Structure of Bacteria • 63 Plasmids • 155
Caroline Buckee and Sunetra Gupta Alessandra Carattoli
v
vi CONTENTS
16. Phage-Shaping Evolution of Bacterial 28. Multiple Stages in the Evolution of
Pathogenicity and Resistance • 167 Methicillin-ResistantStaphylococcus
Juan-Carlos Galán aureus • 333
Herminia de Lencastre and Alexander Tomasz
17. Emergence, Spread, and Extinction of
Pathogenic Bacterial Clones • 185 IV. Evolutionary Pathogenicity of
Lesley McGee, Fred C. Tenover, Bernard Beall, Gram-Negative Bacteria
and Keith P. Klugman
29. Evolution of SalmonellaandSalmonella
18. Specific Chromosome Alterations of Infections • 349
Candida albicans:Mechanisms for Adaptation Rafael Rotger
to Pathogenicity • 197
Elena Rustchenko 30. Evolution of Vibrio choleraeand Cholera
Epidemics • 361
19. Evolution of a Mating System Uniquely Shah M. Faruque and John J. Mekalanos
Dependent upon Switching and Pathogenesis in
Candida albicans • 213 31. Evolution of Haemophilus influenzaeand
David R. Soll HaemophilusInfections • 373
José Campos, Belén Aracil, Silvia García-Cobos
20. Mechanisms of Variation in Microbial and Jesús Oteo
Pathogenesis • 221
Susan K. Hollingshead 32. Evolution of Pathogenic
Yersinia • 385
Stewart J. Hinchliffe, Philippa C.R. Strong,
III. Evolutionary Biology of Drug Resistance
Sarah L. Howard, and Brendan W. Wren
21. Modularization and Evolvability in
33. Evolution of Bordetella pertussisand
Antibiotic Resistance • 233
Bordetella parapertussis as Deduced from
Fernando Baquero
Comparative Genome Analyses • 397
Andrew Preston and Duncan J. Maskell
22. Epidemiology and Evolution of
Beta-Lactamases • 249
34. Genomic View on the Evolution
Rafael Cantón
of Enterohemorrhagic Escherichia
coli • 407
23. Epidemiology and Evolution of Quinolone Tetsuya Hayashi, Tadasuke Ooka, Yoshitoshi
Resistance • 271 Ogura, and Asadulghani
Jordi Vila
35. Evolution of Shigellaand Enteroinvasive
24. Evolution of Glycopeptide Escherichia coli • 421
Resistance • 279 Claude Parsot and Philippe Sansonetti
Patrice Courvalin
36. Evolution of Pseudomonas aeruginosa
25. Emergence and Evolution of Antifungal Pathogenicity: from Acute to Chronic
Resistance • 297 Infections • 433
Thomas D. Edlind Antonio Oliver, Ana Mena, and María D. Maciá
26. Effects of Antibiotic Resistance on Bacterial 37. Evolution of HelicobacterandHelicobacter
Fitness, Virulence, and Transmission • 307 Infections • 445
Dan I. Andersson and Diarmaid Hughes María G. Domínguez-Bello and Martin J. Blaser
27. Evolution of Antibiotic Resistance by 38. Evolution of Legionella pneumophila
Hypermutation • 319 Icm/Dot Pathogenesis System • 455
Jesús Blázquez and José María Gómez-Gómez Gil Segal
CONTENTS vii
39. Evolution of NeisseriaandNeisseria 45. Evolution of Mycoplasma pneumoniaeand
Infections • 465 Mycoplasmal Infections • 543
Muhamed-Kheir Taha María Antonia Meseguer
40. Molecular Evolution of 46. The Pneumococcus: Population Biology and
Chlamydiales • 475 Virulence • 557
Deborah Dean and Kim Millman Mark C. Enright
V. Evolutionary Pathogenicity of Gram-Positive VI. Evolutionary Pathogenicity of
and Related Bacteria Pathogenic Fungi
41. Evolution of Listeria 47. Evolution of Pathogenic Candida
monocytogenes • 491 Species • 567
Pascale Cossart, Carmen Buchrieser, Frank C. Odds
and Jürgen Kreft
48. Pathogenicity of Cryptococcus neoformans:
42. Evolutionary Biology of Pathogenic an Evolutionary Perspective • 581
Enterococci • 501 Oscar Zaragoza, Susana Frasés, and Arturo
Teresa M. Coque Casadevall
43. Evolution of Bacillus anthracis, Causative 49. Aspergillusas a Human Pathogen: an
Agent of Anthrax • 523 Evolutionary Perspective • 591
Paul Keim, Talima Pearson, and Emilia Mellado, Manuel Cuenca-Estrella, and Juan
Richard T. Okinaka L. Rodríguez-Tudela
44. Mycobacterium tuberculosisVirulence and
Key Words in Evolutionary Biology • 603
Evolution • 535
Olivier Neyrolles and Brigitte Gicquel Index • 611
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CONTRIBUTORS
Rebeca Alonso-Monge Jesús Blázquez
Departamento de Microbiología II, Facultad de Departamento de Biotecnología Microbiana,
Farmacia, Universidad Complutense de Madrid, Centro Nacional de Biotecnología, Cantoblanco,
Madrid 28040, Spain Madrid 28049, Spain
Dan I. Andersson Carmen Buchrieser
Department of Medical Biochemistry and Unité de Génomique des Microorganismes
Microbiology, Biomedical Center, Uppsala Pathogènes, CNRS URA 2171, Paris, France
University, Uppsala SE 75123, Sweden
Caroline Buckee
Department of Zoology, University of Oxford,
Belén Aracil
Oxford, United Kingdom
Centro Nacional de Microbiología, Instituto de
Salud Carlos III, Majadahonda, Madrid 28220,
José Campos
Spain
Centro Nacional de Microbiología, Instituto de Salud
Carlos III, Majadahonda, Madrid 28220, Spain
Asadulghani
Division of Bioenvironmental Science, Frontier
Rafael Cantón
Science Research Center, University of Miyazaki,
Servicio de Microbiología, Hospital Universitario
Kiyotake, Miyazaki 889-1692, Japan
Ramón y Cajal, and Departamento de Microbiología,
Facultad de Farmacia, Universidad Complutense,
Jean-Baptiste André
Madrid 28034, Spain
Instituto Gulbenkian de Ciência, Oeiras, Portugal
Alessandra Carattoli
Fernando Baquero
Department of Infectious, Parasitic and
Department of Microbiology, Ramón y Cajal
Immunomediated Diseases, Instituto Superiore di
University Hospital (IMSALUD), and Laboratory
Sanità, Roma 00161, Italy
for Microbial Evolution, Center for Astrobiology
(CAB-INTA-CSIC), Madrid 28034, Spain Arturo Casadevall
Department of Medicine and Department of
Bernard Beall Microbiology and Immunology, Albert Einstein
Centers for Disease Control and Prevention, College of Medicine, Bronx, NY 10461
Atlanta, GA 30333
Thomas R. Connor
Martin J. Blaser Department of Infectious Disease Epidemiology,
Departments of Medicine and Microbiology, St. Mary’s Hospital, Imperial College of London,
New York University, New York, NY 10016 London W2 1PG, United Kingdom
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