Microcosm (34 page)

Read Microcosm Online

Authors: Carl Zimmer

BOOK: Microcosm
8.01Mb size Format: txt, pdf, ePub

Spencer, C. C., M. Bertrand, M. Travisano, and M. Doebeli. 2007. Adaptive diversification in genes that regulate resource use in
Escherichia coli. PLoS Genet
3 (1):e15.

Spudich, J. L., and D. E. Koshland Jr. 1976. Non-genetic individuality: Chance in the single cell.
Nature
262 (5568):467-71.

Stahl, Franklin W. 2001. Alfred Day Hershey. Biographical Memoirs 80. Washington, D.C.: National Academy Press.

Stein, A. J., H. P. Sachdev, and M. Qaim. 2006. Potential impact and cost-effectiveness of Golden Rice.
Nat Biotechnol
24 (10):1200-1201.

Stenuit, B., L. Eyers, R. Rozenberg, J. L. Habib-Jiwan, and S. N. Agathos. 2006. Aerobic growth of
Escherichia coli
with 2,4,6-trinitrotoluene (TNT) as the sole nitrogen source and evidence of TNT denitration by whole cells and cell-free extracts.
Appl Environ Microbiol
72 (12):7945-48.

Stewart, E. J., R. Madden, G. Paul, and F. Taddei. 2005. Aging and death in an organism that reproduces by morphologically symmetric division.
PLoS Biol
3 (2):e45.

Sullivan, Woodruff T., and John Baross, eds. 2007.
Planets and life: The emerging science of astrobiology.
New York: Cambridge University Press.

Talbot, M. 2005. Darwin in the dock.
New Yorker,
December 5, 2005.

TalkOrigins Archive. 2006.
Kitzmiller v. Dover Area School District,
Dover, Pennsylvania Intelligent Design Case.
http://talkorigins.org/faqs/dover/kitzmiller_v_dover.htm
.

Tanaka, R., M. Csete, and J. Doyle. 2005. Highly optimised global organisation of metabolic networks.
Syst Biol
(
Stevenage
) 152 (4):179-84.

Tarr, P. I., C. A. Gordon, and W. L. Chandler. 2005. Shiga-toxin-producing
Escherichia coli
and haemolytic uraemic syndrome.
Lancet
365 (9464):1073-86.

Tatum, E. L., and J. Lederberg. 1947. Gene recombination in the bacterium
Escherichia coli. J Bacteriol
53 (6):673-84.

Tenaillon, O., E. Denamur, and I. Matic. 2004. Evolutionary significance of stress-induced mutagenesis in bacteria.
Trends Microbiol
12 (6):264-70.

Tenover, F. C. 2006. Mechanisms of antimicrobial resistance in bacteria.
Am J Med
119 (6 Suppl. 1):S3-10, discussion S62-70.

Thanbichler, M., and L. Shapiro. 2006. Chromosome organization and segregation in bacteria.
J Struct Biol
156 (2):292-303.

Thiem, S., D. Kentner, and V. Sourjik. 2007. Positioning of chemosensory clusters in
E. coli
and its relation to cell division.
Embo J
26 (6):1615-23.

Thomas, W. E., L. M. Nilsson, M. Forero, E. V. Sokurenko, and V. Vogel. 2004. Shear-dependent “stick-and-roll” adhesion of type 1 fimbriated
Escherichia coli. Mol Microbiol
53 (5):1545-57.

Thornton, I.W.B. 1996.
Krakatau: The destruction and reassembly of an island ecosystem.
Cambridge, Mass.: Harvard University Press.

Tomitani, A., A. H. Knoll, C. M. Cavanaugh, and T. Ohno. 2006. The evolutionary diversification of cyanobacteria: Molecular-phylogenetic and paleontological perspectives.
Proc Natl Acad Sci USA
103 (14):5442-47.

Travisano, M., J.A. Mongold, A. F. Bennett, and R. E. Lenski. 1995. Experimental tests of the roles of adaptation, chance, and history in evolution.
Science
267 (5194):87-90.

Trinh, C. T., R. Carlson, A. Wlaschin, and F. Srienc. 2006. Design, construction and performance of the most efficient biomass-producing
E. coli
bacterium.
Metab Eng
8 (6): 628-38.

U.S. Congress. Senate. 2005.
Human Chimera Prohibition Act of 2005.
S659.109th Cong., 1st sess.

U.S. Department of Health and Human Services, Centers for Disease Control and Prevention. 2006. Multi-state outbreak of
E. coli
O157:H7 infections from spinach. September–October.
http://www.cdc.gov/ecoli2006/September/
.

Van Till, Howard J. 2002.
E. coli
at the
No Free Lunchroom:
Bacterial flagella and Dembski’s case for intelligent design. American Association for the Advancement of Science.
http://www.aaas.org/spp/dser/03_Areas/evolution/perspectives/vantillecoli_2002.pdf
.

Varma, J. K., K. D. Greene, M. E. Reller, S. M. DeLong, J. Trottier, S. F. Nowicki, M. DiOrio, E. M. Koch, T. L. Bannerman, S. T. York, M. A. Lambert-Fair, J. G. Wells, and P. S. Mead. 2003. An outbreak of
Escherichia coli
O157 infection following exposure to a contaminated building.
JAMA
290 (20):2709-12.

Vulíc, M., and R. Kolter. 2001. Evolutionary cheating in
Escherichia coli
stationary phase cultures.
Genetics
158 (2):519-26.

Wade, Nicholas. 1977.
The ultimate experiment: Man-made evolution.
New York: Walker.

Walters, M., and V. Sperandio. 2006. Quorum sensing in
Escherichia coli
and
Salmonella. Int J Med Microbiol
296 (2-3):125-31.

Wandersman, C., and P. Delepelaire. 2004. Bacterial iron sources: From siderophores to hemophores.
Annu Rev Microbiol
58:611-47.

Wang, L., J. Xie, and P. G. Schultz. 2006. Expanding the genetic code.
Annu Rev Biophys Biomol Struct
35:225-49.

Warmflash, D., and B. Weiss. 2005. Did life come from another world?
Sci Am
293 (5):64-71.

Watanabe, T. 1963. Infective heredity of multiple drug resistance in bacteria.
Bacteriol Rev
27:87-115.

Watson, James D. 1969.
The double helix: A personal account of the discovery of the structure of DNA.
New York: New American Library.

Watson, James D., and John Tooze. 1981.
The DNA story: A documentary history of gene cloning.
San Francisco: W. H. Freeman.

Welch, R. A., V. Burland, G. Plunkett III, P. Redford, P. Roesch, D. Rasko, E. L. Buckles, S. R. Liou, A. Boutin, J. Hackett, D. Stroud, G. F. Mayhew, D. J. Rose, S. Zhou, D. C. Schwartz, N. T. Perna, H. L. Mobley, M. S. Donnenberg, and F. R. Blattner. 2002. Extensive mosaic structure revealed by the complete genome sequence of uropathogenic
Escherichia coli. Proc Natl Acad Sci USA
99 (26):17020-24.

Wells, H. G. 1896.
The island of Dr. Moreau.
Garden City, N.Y.: Garden City Publishing.

West, S. A., A. S. Griffin, A. Gardner, and S. P. Diggle. 2006. Social evolution theory for microorganisms.
Nat Rev Microbiol
4 (8):597-607.

White-Ziegler, C. A., A. J. Malhowski, and S. Young. 2007. Human body temperature (37 C) increases the expression of iron, carbohydrate, and amino acid utilization genes in
Escherichia coli
K-12.
J Bacteriol
189:5429-40.

Wick, L. M., W. Qi, D. W. Lacher, and T. S. Whittam. 2005. Evolution of genomic content in the stepwise emergence of
Escherichia coli
O157:H7.
J Bacteriol
187 (5):1783-91.

Willenbrock, H., and D. W. Ussery. 2004. Chromatin architecture and gene expression in
Escherichia coli. Genome Biol
5 (12):252.

Williams, G. C. 1966.
Adaptation and natural selection.
Princeton: Princeton University Press.

———. 1999. The 1999 Crafoord Prize lectures. The Tithonus error in modern gerontology.
Q Rev Biol
74 (4):405-15.

Wirth, T., D. Falush, R. Lan, F. Colles, P. Mensa, L. H. Wieler, H. Karch, P. R. Reeves, M. C. Maiden, H. Ochman, and M. Achtman. 2006. Sex and virulence in
Escherichia coli:
An evolutionary perspective.
Mol Microbiol
60 (5):1136-51.

Wise, R., and E. J. Soulsby. 2002. Antibiotic resistance—an evolving problem.
Vet Rec
151 (13): 371-72.

Woese, C. R., and G. E. Fox. 1977. Phylogenetic structure of the prokaryotic domain: The primary kingdoms.
Proc Natl Acad Sci USA
74 (11):5088-90.

Woldringh, C. L., and N. Nanninga. 2006. Structural and physical aspects of bacterial chromosome segregation.
J Struct Biol
156 (2):273-83.

Wolf, D. M., V. V. Vazirani, and A. P. Arkin. 2005. Diversity in times of adversity: Probabilistic strategies in microbial survival games.
J Theor Biol
234 (2):227-53.

Wolfe, A. J. 2005. The acetate switch.
Microbiol Mol Biol Rev
69 (1):12-50.

Woods, R., D. Schneider, C. L. Winkworth, M. A. Riley, and R. E. Lenski. 2006. Tests of parallel molecular evolution in a long-term experiment with
Escherichia coli. Proc Natl Acad Sci USA
103 (24):9107-12.

Wright, Susan. 1994.
Molecular politics: Developing American and British regulatory policy for genetic engineering, 1972
?
1982.
Chicago: University of Chicago Press.

Xavier, J. B., and K. R. Foster. 2007. Cooperation and conflict in microbial biofilms.
Proc Natl Acad Sci USA
104 (3):876-81.

Zelaya, Ian A., Michael D. K. Owen, and Mark J. VanGessel. 2007. Transfer of glyphosate resistance: Evidence of hybridization in
Conyza
(Asteraceae).
Am J Bot
94 (4):660-73.

Zhang, W., W. Qi, T. J. Albert, A. S. Motiwala, D. Alland, E. K. Hyytia-Trees, E. M. Ribot, P. I. Fields, T. S. Whittam, and B. Swaminathan. 2006. Probing genomic diversity and evolution of
Escherichia coli
O157 by single nucleotide polymorphisms.
Genome Res
16 (6):757-67.

Zhou, T., J. M. Carlson, and J. Doyle. 2005. Evolutionary dynamics and highly optimized tolerance.
J Theor Biol
236 (4):438-47.

Zilinskas, Raymond A., and Burke K. Zimmerman. 1986.
The gene-splicing wars: Reflections on the recombinant DNA controversy.
New York: Macmillan.

Zimmer, C. 2004. George C. Williams profile: Stretching the limits of evolutionary biology.
Science
304 (5675):1235-36.

———. 2006. Did DNA come from viruses?
Science
312 (5775):870-72.

———. 2007a. Evolved for cancer?
Sci Am
296 (1):68-74, 75A.

———. 2007b. Fast-reproducing microbes provide a window on natural selection.
New York Times,
June 26, 2007.

Zinser, E. R., and R. Kolter. 2004.
Escherichia coli
evolution during stationary phase.
Res Microbiol
155 (5):328-36.

Zorzano, M. P., D. Hochberg, M. T. Cuevas, and J. M. Gómez-Gómez. 2005. Reaction-diffusion model for pattern formation in
E. coli
swarming colonies with slime.
Phys Rev E Stat Nonlin Soft Matter Phys
71 (3 pt. 1):031908.

ALSO BY CARL ZIMMER

At the Water’s Edge: Fish with Fingers, Whales with Legs, and How Life Came Ashore but Then Went Back to the Sea

Parasite Rex: Inside the Bizarre World of Nature’s Most Dangerous Creatures

Evolution: The Triumph of an Idea

Soul Made Flesh: The Discovery of the Brain and How It Changed the World

Smithsonian Intimate Guide to Human Origins

Copyright © 2008 by Carl Zimmer

All rights reserved. Published in the United States by Pantheon Books, a division of Random House, Inc., New York, and in Canada by Random House of Canada Limited, Toronto.

Pantheon Books and colophon are registered trademarks of Random House, Inc.

All illustrations by Tadeusz Majewski unless otherwise noted.

Library of Congress Cataloging-in-Publication Data

Zimmer, Carl, [date]

Microcosm : E. coli and the new science of life / Carl Zimmer.

p. cm.

Includes bibliographical references.

1. Escherichia coli. 2. Microbiology—History. 3. Molecular biology—History. 4. Genetics—History.
I.
Title. [DNLM: 1. Escherichia coli. 2. Microbiology—history. 3. Genetics—history. 4. History, 20th century. 5. Molecular biology—history.
QW
11.1
Z
72m 2008]

QR
82.
E
6
Z
56 2008                                                               579.3'42—dc22                                                               2007037155

www.pantheonbooks.com

eISBN: 978-0-307-37756-2

v3.0

Other books

The Holiday Nanny by Lois Richer
The Accidental Theorist by Krugman, Paul
Spellbound by Cara Lynn Shultz
The Warlock's Curse by Hobson, M.K.
Keeping it Real by Annie Dalton
Palm Springs Heat by Dc Thome
A Changed Man by Francine Prose