Microbial Biofilms

421 Pages·2015·25.655 MB·English

by  Mahmoud A. Ghannoum, Matthew Parsek, Marvin Whiteley, Pranab K. Mukherjee (eds.)

MICROBIAL BIOFILMS, SECOND EDITION Ghannoum MICROBIAL
Parsek
An examination of the research and translational applications Whiteley
to prevent and treat biofilm-associated diseases Mukherjee
In the decade since the first edition of Microbial Biofilms was published, the interest in this field has expanded,
spurring breakthrough research that has advanced the treatment of biofilm-associated diseases. This second M BIOFILMS
edition takes the reader on an exciting, extensive review of bacterial and fungal biofilms, ranging from basic
molecular interactions to innovative therapies, with particular emphasis on the division of labor in biofilms, new
approaches to combat the threat of microbial biofilms, and how biofilms evade the host defense.
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Chapters written by established investigators cover recent findings, and contributions from investigators new to C
the field provide unique and fresh insights. Specifically, Microbial Biofilms provides SECOND EDITION
• state-of-the-art research in the field of bacterial and fungal biofilms
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• detailed descriptions of the in vitro and in vivo models available to evaluate microbial biofilms
• future areas of research and their translational and clinical applications O
Microbial Biofilms is a useful reference for researchers and clinicians. It will also provide insight into the dynamic
field of microbial biofilms for graduate and postgraduate students.
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“ Biofilms influence human health and agriculture, and sustain diverse ecosystems. This second edition
of Microbial Biofilms provides a masterful overview of critical topics central to fungal and bacterial I
biofilms by celebrated experts in the field. It is a must read for any professional seeking basic or A
advanced knowledge of microbial biofilms.”
– David S. Perlin, Professor and Executive Director
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Public Health Research Institute, New Jersey Medical School-Rutgers University

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Mahmoud A. Ghannoum is a Professor in the De- Pranab Mukherjee is an Assistant Professor in the I
partment of Dermatology at Case Western Reserve Department of Dermatology at Case Western Reserve O
University and University Hospitals Case Medical Center University. Dr. Mukherjee has extensive experience in
and Director of the Center for Medical Mycology. Dr. fungal pathogenesis and microbial biofilms, including
Ghannoum’s investigations include the biology, patho- analyses of their biochemical and molecular pathways
genesis, and resistance of clinically important fungi using systems biology approaches. He also studies the
Candida, Aspergillus, and Cryptococcus, and his work human microbiome (bacteriome and mycobiome) in F
has recently focused on the oral microbiome, fungal species, and human health and disease, including HIV-infection, corneal infections, inflammatory
disease. He has published more than 300 peer-reviewed articles in the field bowel disease, eczema, and psoriasis. He advises pharmaceutical companies I Editors
of biofilms, microbial pathogenesis, and preclinical in vitro and in vivo evalu- in antifungal drug development .
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ations of antimicrobials.
Marvin Whiteley is the Director of the Center for
Matthew Parsek is a Professor of Microbiology at Infectious Disease and a fellow of the John Ring M Mahmoud Ghannoum
the University of Washington, School of Medicine at LaMontagne Chair in Infectious Diseases and Global
Seattle. Dr. Parsek’s research focuses on microbial Health at the University of Texas at Austin. Dr. Whiteley’s Matthew Parsek
community behaviors and their relationship to disease. research focuses on understanding how microbes within
infection sites cooperate to cause disease.
S Marvin Whiteley
Pranab K. Mukherjee
SECOND
EDITION
ISBN 9781555817459
90000 >

9 781555 817459
MICROBIAL
BIOFILMS
SECOND EDITION

MICROBIAL
BIOFILMS
SECOND EDITION
Editors
Mahmoud Ghannoum
Matthew Parsek
Marvin Whiteley
Pranab K. Mukherjee
Washington, DC
Copyright © 2015 by ASM Press. ASM Press is a registered trademark of the American Society for
Microbiology. All rights reserved. No part of this publication may be reproduced or transmitted
in whole or in part or reutilized in any form or by any means, electronic or mechanical, including
photocopying and recording, or by any information storage and retrieval system, without
permission in writing from the publisher.
Disclaimer: To the best of the publisher’s knowledge, this publication provides information
concerning the subject matter covered that is accurate as of the date of publication. The publisher
is not providing legal, medical, or other professional services. Any reference herein to any specifi c
commercial products, procedures, or services by trade name, trademark, manufacturer, or
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American Society for Microbiology (ASM). The views and opinions of the author(s) expressed in this
publication do not necessarily state or refl ect those of ASM, and they shall not be used to advertise
or endorse any product.
Library of Congress Cataloging-in-Publication Data
Microbial biofi lms / editors, Mahmoud Ghannoum, Case Western University, Cleveland, OH;
Matthew Parsek, University of Washington, Seattle, WA; Marvin Whiteley, University of Texas at
Austin, Austin, TX; Pranab K. Mukherjee, Case Western University, Cleveland, OH. -- 2nd edition.
pages cm
Includes bibliographical references and index.
ISBN 978-1-55581-745-9 (alk. paper) -- ISBN 978-1-55581-746-6 (alk. paper) 1. Biofi lms. I. Ghannoum,
Mahmoud A. (Mahmoud Afi f), editor. II. Parsek, Matthew R., editor. III. Whiteley, Marvin, editor. IV.
Mukherjee, Pranab K., editor.
QR100.8.B55M5252 2015
579’.17--dc23
2015030735
ISBN 978-1-55581-745-9
e-ISBN 978-1-55581-746-6
doi:10.1128/9781555817466
Printed in the United States of America
10 9 8 7 6 5 4 3 2 1
Address editorial correspondence to: ASM Press, 1752 N St., N.W., Washington, DC 20036-2904, USA.
Send orders to: ASM Press, P.O. Box 605, Herndon, VA 20172, USA.
Phone: [phone]. Fax: [phone].
E-mail: [email protected]
Online: http://estore.asm.org.
Contents
Contributors(cid:2)vii
Preface(cid:2)xiii
Acknowledgments(cid:2)xv
 1 New Technologies for Studying Biofi lms(cid:3)1
Michael J. Franklin, Connie Chang, Tatsuya Akiyama, and Brian Bothner
 2 Fungal Biofi lms: In Vivo Models for Discovery of Anti-Biofi lm Drugs(cid:3)33
Jeniel E. Nett and David R. Andes
 3 Biofi lm Development(cid:3)51
Tim Tolker-Nielsen
 4 Division of Labor in Biofi lms: the Ecology of Cell Diff erentiation(cid:3)67
Jordi van Gestel, Hera Vlamakis, and Roberto Kolter
 5 Candida albicans Biofi lm Development and Its Genetic Control(cid:3)99
Jigar V. Desai and Aaron P. Mitchell
 6 Candida Biofi lms: Development, Architecture, and Resistance(cid:3)115
Jyotsna Chandra and Pranab K. Mukherjee
 7 Biofi lm Formation by Cryptococcus neoformans(cid:3)135
Luis R. Martinez and Arturo Casadevall
 8 Aspergillus Biofi lm In Vitro and In Vivo(cid:3)149
Anne Beauvais and Jean-Paul Latgé
 9 Adhesins Involved in Attachment to Abiotic Surfaces by Gram-Negative Bacteria(cid:3)163
Cécile Berne, Adrien Ducret, Gail G. Hardy, and Yves V. Brun
10 Biofi lm Matrix Proteins(cid:3)201
Jiunn N. C. Fong and Fitnat H. Yildiz
11 Bacterial Extracellular Polysaccharides in Biofi lm Formation and Function(cid:3)223
Dominique H. Limoli, Christopher J. Jones, and Daniel J. Wozniak
12 The Biology of the Escherichia coli Extracellular Matrix(cid:3)249
David A. Hufnagel, William H. DePas, and Matthew R. Chapman
13 Antimicrobial Tolerance in Biofi lms(cid:3)269
Philip S. Stewart
14 How Biofi lms Evade Host Defenses(cid:3)287
Emmanuel Roilides, Maria Simitsopoulou, Aspasia Katragkou, and Thomas J. Walsh
v
vi CONTENTS
15 c-di-GMP and its Eff ects on Biofi lm Formation and Dispersion: a
Pseudomonas Aeruginosa Review(cid:3)301
Dae-Gon Ha and George A. O’Toole
16 Mechanisms of Competition in Biofi lm Communities(cid:3)319
Olaya Rendueles and Jean-Marc Ghigo
17 Dispersal from Microbial Biofi lms(cid:3)343
Nicolas Barraud, Staff an Kjelleberg, and Scott A. Rice
18 Chemical Biology Strategies for Biofi lm Control(cid:3)363
Liang Yang and Michael Givskov
19 From Biology to Drug Development: New Approaches to Combat the
Threat of Fungal Biofi lms(cid:3)373
Christopher G. Pierce, Anand Srinivasan, Anand K. Ramasubramanian, and
José L. López-Ribot
Index(cid:2)389
Contributors
Tatsuya Akiyama
Center for Biofi lm Engineering
Department of Microbiology and Immunology
Montana State University-Bozeman
Bozeman, MT 59717
David R. Andes
Department of Medicine and Department of Medical Microbiology and
Immunology
University of Wisconsin
Madison, WI 53706
Nicolas Barraud
Centre for Marine Bio-Innovation and School of Biotechnology and
Biomolecular Sciences
The University of New South Wales
Sydney, NSW 2052, Australia
Anne Beauvais
Unité des Aspergillus
Institut Pasteur
75015 Paris, France
Cécile Berne
Department of Biology
Jordan Hall JH142
Indiana University
Bloomington, IN 47405
Brian Bothner
Center for Biofi lm Engineering
Department of Chemistry and Biochemistry
Montana State University-Bozeman
Bozeman, MT 59717
Yves V. Brun
Department of Biology
Jordan Hall JH142
Indiana University
Bloomington, IN 47405
vii
viii CONTRIBUTORS
Arturo Casadevall
Department of Molecular Microbiology and Immunology
Johns Hopkins Bloomberg School of Public Health
Baltimore, MD 21205
Jyotsna Chandra
Center for Medical Mycology and Mycology Reference Laboratory
Department of Dermatology
University Hospitals of Cleveland and Case Western Reserve University
Cleveland, OH 44106
Connie Chang
Center for Biofi lm Engineering
Department of Chemical and Biological Engineering
Montana State University-Bozeman
Bozeman, MT 59717
Matthew R. Chapman
Department of Molecular, Cellular, and Developmental Biology
University of Michigan
Ann Arbor, MI 48109
William H. DePas
Department of Microbiology and Immunology
University of Michigan
Ann Arbor, MI 48109
Jigar V. Desai
Department of Biological Sciences
Carnegie Mellon University
Pittsburgh, PA 15213
Adrien Ducret
Department of Biology
Jordan Hall JH142
Indiana University
Bloomington, IN 47405
Jiunn N. C. Fong
Department of Microbiology and Environmental Toxicology
University of California, Santa Cruz
Santa Cruz, CA 95064
Michael J. Franklin
Center for Biofi lm Engineering
Department of Microbiology and Immunology
Montana State University-Bozeman
Bozeman, MT 59717
Jean-Marc Ghigo
Institut Pasteur
Unité de Génétique des Biofi lms
Département de Microbiologie
F-75015 Paris, France
CONTRIBUTORS ix
Michael Givskov
Singapore Centre on Environmental Life Sciences Engineering
Nanyang Technological University
Singapore
Costerton Biofi lm Center
Department of International Health, Immunology, and Microbiology
University of Copenhagen
2200 København N, Denmark
Dae-Gon Ha
Departments of Microbiology and Immunology
Geisel School of Medicine at Dartmouth
Hanover, NH 03755
Gail G. Hardy
Department of Biology
Jordan Hall JH142
Indiana University
Bloomington, IN 47405
David A. Hufnagel
Department of Molecular, Cellular, and Developmental Biology
University of Michigan
Ann Arbor, MI 48109
Christopher J. Jones
Department of Microbiology and Environmental Toxicology
University of California, Santa Cruz
Santa Cruz, CA 95064
Aspasia Katragkou
Infectious Diseases Unit
3rd Department of Pediatrics
Faculty of Medicine
Aristotle University School of Health Sciences
Hippokration Hospital
54642 Thessaloniki, Greece
Transplantation-Oncology Infectious Diseases Program
Weill Cornell Medical Center of Cornell University
New York, NY 14850
Staff an Kjelleberg
Centre for Marine Bio-Innovation and School of Biotechnology and
Biomolecular Sciences
The University of New South Wales
Sydney, NSW 2052, Australia
Singapore Centre on Environmental Life Sciences Engineering, and the School
of Biological Sciences
Nanyang Technological University
Singapore 639798