A comprehensive reference on the state of the science for both experienced researchers and for those who are interested in discovering its many promising applications.
This page intentionally left blank
Address editorial correspondence to ASM Press, 1752 N St. NW, Washington, DC 20036-2904, USA Send orders to ASM Press, P.O. Box 605, Herndon, VA 20172, USA Phone: 800-546-2416; 703-661-1593 Fax: 703-661-1501 E-mail:
[email protected] Online: estore.asm.org Copyright 2010 ASM Press American Society for Microbiology 1752 N St. NW Washington, DC 20036-2904 Library of Congress Cataloging-in-Publication Data The second messenger cyclic di-GMP / edited by Alan J. Wolfe and Karen L. Visick. p. ; cm. Includes bibliographical references and index. ISBN 978-1-55581-499-1 (hard cover) 1. Cyclic guanylic acid. 2. Second messengers (Biochemistry) I. Wolfe, Alan J. II. Visick, Karen L. III. American Society for Microbiology. [DNLM: 1. Cyclic GMP—physiology. 2. Bacterial Physiological Phenomena. 3. Cyclic GMP—analogs & derivatives. 4. Genome, Bacterial. 5. Signal Transduction—physiology. QU 58 S445 2010] QP625.N89S43 2010 572.8’6293—dc22 2009036432 Current printing (last digit) 10 9 8 7 6 5 4 3 2 1 All Rights Reserved Printed in the United States of America Cover illustration: A wrinkled colony formed by a mutant of Vibrio cholerae. The phenotype is associated with cyclic di-GMP production. (Courtesy of Nicholas J. Shikuma and Fitnat H. Yildiz.)
CONTENTS
Contributors Preface •
I.
• xi
7. Making, Breaking, and Sensing of Cyclic Di-GMP: Structural, Thermodynamic, and Evolutionary Principles • 76 Dorothy Kim, John F. Hunt, and Tilman Schirmer
vii
Second Messengers: an Overview III.
1. Introduction to Second Messengers: Lessons from Cyclic AMP • 3 Alan J. Wolfe II.
Cyclic Di-GMP and Lifestyle Choices
8. Choosing the Right Lifestyle: Regulation of Developmental Pathways by Cyclic Di-GMP • 99 Matthew Parsek and Phillip Aldridge
General Principles: the Core
9. Role of Cyclic Di-GMP in Caulobacter crescentus Development and Cell Cycle Control • 120 So ¨ren Abel and Urs Jenal
2. Moshe Benziman and the Discovery of Cyclic Di-GMP • 11 Dorit Amikam, Haim Weinhouse, and Michael Y. Galperin
10. Hierarchical Control of rdar Morphotype Development of Salmonella enterica by Cyclic Di-GMP • 137 ¨ jar Melefors, Nina Ute Ro ¨mling, Kristina Jonas, O Grantcharova, and Agaristi Lamprokostopoulou
3. Ubiquity of Cyclic Di-GMP Pathways: a Bioinformatic Analysis • 24 Michael Y. Galperin 4. The Core Pathway: Diguanylate Cyclases, Cyclic Di-GMP-Specific Phosphodiesterases, and Cyclic Di-GMP-Binding Proteins • 37 Mark Gomelsky
11. Role of Cyclic Di-GMP in Pseudomonas aeruginosa Biofilm Development • 156 Caroline S. Harwood
5. The HD-GYP Domain and Cyclic Di-GMP Signaling • 57 Robert P. Ryan, Yvonne McCarthy, and J. Maxwell Dow
12. The Scr Circuit in Vibrio parahaemolyticus Modulates Swarming and Sticking • 173 Linda L. McCarter 13. Roles of Diguan