Physical Biology of the Cell, Second Edition

NEW SECOND EDITION

www.garlandscience.com

Rob Phillips

(A)

(B)

Julie Theriot

Jane Kondev is a Professor of Physics in the Graduate Program in Quantitative Biology at Brandeis University.

He received his Physics BS degree from the University of Belgrade, and his PhD from Cornell University.

Julie Theriot is a Professor of Biochemistry and of Microbiology and Immunology at the Stanford University School of Medicine. She received concurrent BS degrees in Physics and Biology from the Massachusetts Institute of Technology, and a PhD in Cell Biology from the University of California at San Francisco.

Hernan G. Garcia is an Associate Research Fellow at Princeton University. He received a BS in Physics from the University of Buenos Aires and a PhD in Physics from the California Institute of Technology.

50 mm

flagellum

December 2012 1,000 pages • 742 illustrations Paper • 978-0-8153-4450-6 • £53.00

water

outer membrane

8. Random Walks and the Structure of Macromolecules 9. Electrostatics for Salty Solutions 10. Beam Theory 11. Biological Membranes

PART II: LIFE AT REST 5. Mechanical and Chemical Equilibrium 6. Entropy Rules!

7. Two-State Systems

PART III: LIFE IN MOTION

0.2

0.4

0.6 x/L

0.8

1

50 0 0

50 100 150 200 raw anti-Bcd intensity

membrane protein

106

inorganic ion

+ 6x107

lipid protein 5x107

inner membrane

2x106 2x103

ribosome

mRNA

2x104

5x106bp

ribosome

DNA

DNA

Figure 2.4 Molecular contents of the bacterium E. coli.

NEW TO THE SECOND EDITION ►

►

►

► ► ►

12. The Mathematics of Water 13. A Statistical View of Biological Dynamics 14. Crowded and Disordered Environments

STUDENT & INSTRUCTOR RESOURCES

2x1010

New chapter on “Light and Life.” Describes the intersection of quantum mechanics and biology.

New chapter on “Biological Patterns: Order in Space and Time.” Studies pattern formation, critical to fields such as developmental biology and tissue engineering.

New boxes called “Computational Explorations.” These boxes complement the emphasis on analytic calculations with computational approaches.

Full-color illustrations throughout.

Significantly expanded end-of-chapter problems.

Further reading and references updated for each chapter.

CONTENTS PART I: THE FACTS OF LIFE 1. Why: Biology by the Numbers 2. What and Where 3. When: Stopwatches at Many Scales 4. Who: “Bless the Little Beasties”

20

lipopolysaccharide

mRNA

The Second Edition features full-color illustrations throughout, two new chapters, a significantly expanded set of end-of-chapter problems, and is available in a variety of e-book formats.

100

30

Figure 20.6 Spatial patterning of Bicoid and Hunchback.

Physical Biology of the Cell is a textbook for a first course in physical biology or biophysics for undergraduate or graduate students. It maps the huge and complex landscape of cell and molecular biology from the distinct perspective of physical biology.

As a key organizing principle, the proximity of topics is based on the physical concepts that unite a given set of biological phenomena. Herein lies the central premise: that the appropriate application of a few fundamental physical models can serve as the foundation of whole bodies of quantitative biological intuition, useful across a wide range of biological problems.

150

40

10

Hernan G. Garcia

Rob Phillips is the Fred and Nancy Morris Professor of Biophysics and Biology at the California Institute of Technology. He received a PhD in Physics from Washington University in St. Louis.

50

0 0

200

raw anti-Hb intensity

[Bcd]nuc(nM)

Jane Kondev

ABOUT THE AUTHORS

(C)

60

NEW CHAPTER

15. Rate Equations and Dynamics in the Cell 16. Dynamics of Molecular Motors 17. Biological Electricity 18. Light and Life

Figures and PowerPoint® Presentations The figures from the book are available in two convenient formats: PowerPoint and JPEG.

Data Sets The original data used to create the figures and homework problems are available in Excel® spreadsheets. With this data, the reader can extend the theoretical tools developed in the book to fit experimental data for a wide range of problems.

Hints for Problems This PDF provides hints and strategies for tackling some of the more difficult end-of chapter problems.

Matlab® and Mathematica® Code These files contain code for the “Computational Explorations” sidebars located throughout the book.

Movies The movies complement the figures and discussion from the book by illustrating the rich dynamics exhibited by living organisms and the molecules that make them tick.

Solutions Manual This PDF contains solutions to all problems in the book, available only to adopting instructors.

PART IV: THE MEANING OF LIFE NEW CHAPTER

19. Organization of Biological Networks 20. Biological Patterns: Order in Space and Time 21. Sequences, Specificity, and Evolution 22. Whither Physical Biology?

A sample chapter and detailed table of contents are available at www.garlandscience.com/PBOC2.

With the exception of the Solutions Manual, these resources are available on the Physical Biology of the Cell media website: http://microsite.garlandscience.com/pboc2.

ISBN: 978-0-418-26921-3

www.garlandscience.com www.garlandscience.com

Praise for the First Edition of

Physical Biology of the Cell “Physical Biology of the Cell…aims to be both an introduction to molecular and cellular biology for physicists and an introduction to physics for biologists. Though that sounds like a daunting task, the book fully and impressively delivers. Physical Biology of the Cell might well become a similar classic [as Molecular Biology of the Cell] for anyone who heeds its mantra “quantitative data demand quantitative models.” It will give both physicists and biologists a useful introduction into the other camp’s methods and ways of thinking.”

—Physics Today

“[The] authors of Physical Biology of the Cell have produced one of the first multi-purpose textbooks that is readily accessible to both physicists and biologists….When read from cover to cover, the book is both very instructive and highly entertaining, with the authors using humor to deliver strong take-home messages in each chapter… Physical Biology of the Cell provides instructors with excellent material to create a graduate level course in biology or physics.”

—Nature Cell Biology

“Physical Biology of the Cell is beautifully crafted: self-contained and modular, it provides tutorials on fundamentals and has material to hold the interest of a more sophisticated reader. It is fast-paced, proceeding within each chapter from freshman basics to graduate level sophistication. To truly master the physics presented in the book, one should do the problems provided with each chapter. These problems are well thought out and are a major teaching resource.”

—Cell

“…a monumental undertaking by three outstanding experts in the field…the book is a rich collection of special topics in biophysics…”

—Quarterly Review of Biology

“I would thoroughly recommend [Physical Biology of the Cell] to anyone interested in investigating or applying biophysical research methods to their work. It is likely to be a fantastic teaching tool and is a welcome addition in this age of increasingly interdisciplinary science.”

—The British Society for Cell Biology Newsletter