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Microcosm
Cover of Microcosm
Microcosm
E. coli and the New Science of Life
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A Best Book of the YearSeed Magazine Granta Magazine The Plain-DealerIn this fascinating and utterly engaging book, Carl Zimmer traces E. coli's pivotal role in the history of biology, from the discovery of DNA to the latest advances in biotechnology. He reveals the many surprising and alarming parallels between E. coli's life and our own. And he describes how E. coli changes in real time, revealing billions of years of history encoded within its genome. E. coli is also the most engineered species on Earth, and as scientists retool this microbe to produce life-saving drugs and clean fuel, they are discovering just how far the definition of life can be stretched.
A Best Book of the YearSeed Magazine Granta Magazine The Plain-DealerIn this fascinating and utterly engaging book, Carl Zimmer traces E. coli's pivotal role in the history of biology, from the discovery of DNA to the latest advances in biotechnology. He reveals the many surprising and alarming parallels between E. coli's life and our own. And he describes how E. coli changes in real time, revealing billions of years of history encoded within its genome. E. coli is also the most engineered species on Earth, and as scientists retool this microbe to produce life-saving drugs and clean fuel, they are discovering just how far the definition of life can be stretched.
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Excerpts-
  • From the book SIGNATURE

    I GAZE OUT A WINDOW, a clear, puck-shaped box in my hand. Life fills my view: fescue and clover spreading out across the yard, rose of Sharon holding out leaves to catch sunlight and flowers to lure bumblebees. An orange cat lurks under a lilac bush, gazing up at an oblivious goldfinch. Snowy egrets and seagulls fly overhead. Stinkhorns and toadstools rudely surprise. All of these things have something in common with one another, something not found in rocks or rivers, in tugboats or thumbtacks. They live.  

    The fact that they live may be obvious, but what it means for them to be alive is not. How do all of the molecules in a snowy egret work together to keep it alive? That's a good question, made all the better by the fact that scientists have decoded only a few snips of snowy egret DNA. Most other species on Earth are equally mysterious. We don't even know all that much about ourselves. We can now read the entire human genome, all 3.5 billion base pairs of DNA in which the recipe for Homo sapiens is written. Within this genetic tome, scientists have identified about 18,000 genes, each of which encodes proteins that build our bodies. And yet scientists have no idea what a third of those genes are for and only a faint understanding of most of the others. Our ignorance actually reaches far beyond protein-coding genes. They take up only about 2 percent of the human genome. The other 98 percent of our DNA is a barely explored wilderness.

    Only a few species on the entire planet are exceptions to this rule. The biggest exception lives in the plastic box in my hand. The box-a petri dish-looks lifeless compared with the biological riot outside my window. A few beads of water cling to the underside of the lid. On the bottom is a layer of agar, a firm gray goo made from dead algae and infused with sugar and other compounds. On top of the agar lies a trail of pale gold spots, a pointillistic flourish. Each of those spots is made up of millions of bacteria. They belong to a species that scientists have studied intensely for a century, that they understand better than almost any other species on the planet. I've made this species my guide-an oracle that can speak of the difference between life and lifeless matter, of the rules that govern all living things-bacteria, snowy egret, and curious human. I turn over the dish. On the bottom is a piece of tape labeled "E. coli K-12 (P1 strain)."  

    I got my dish of Escherichia coli on a visit to Osborne Memorial Laboratories, a fortress of a building on the campus of Yale University. On the third floor is a laboratory filled with nose-turning incubators and murky flasks. A graduate student named Nadia Morales put on purple gloves and set two petri dishes on a lab bench. One was sterile, and the other contained a cloudy mush rich with E. coli. She picked up a loop-a curled wire on a plastic handle-and stuck it in the flame of a Bunsen burner. The loop glowed orange. She moved it away from the flame, and after it cooled down she dipped it into the mush. Opening the empty dish, she smeared a dollop across the sterile agar as if she were signing it. Morales snapped the lid on the second dish and taped it shut.  

    "You'll probably start seeing colonies tomorrow," she said, handing it to me. "In a few days it will get stinky."  

    It was as if Morales had given me the philosopher's stone. The lifeless agar in my petri dish began to rage with new chemistry. Old molecules snapped apart and were forged together into new ones. Oxygen molecules disappeared from the air in the dish, and carbon dioxide and beads of water were created. Life...
About the Author-
  • Carl Zimmer writes about science for The New York Times, and his work also appears in National Geographic, Scientific American, and Discover, where he is a contributing editor. He won a 2007 National Academies Communication Award, the highest honor for science writing. He is the author of five prevcious books, including Evolution: The Triumph of an Idea and Parasite Rex, for which he has earned fellowships from the John Simon Guggenheim Memorial Foundation and the Alfred P. Sloan Foundation. Zimmer also writes an award-winning blog, The Loom. He lives in Connecticut with his wife and children.
Reviews-
  • Publisher's Weekly

    February 18, 2008
    When most readers hear the words E. coli
    , they think tainted hamburger or toxic spinach. Noted science writer Zimmer says there are in fact many different strains of E. coli
    , some coexisting quite happily with us in our digestive tracts. These rod-shaped bacteria were among the first organisms to have their genome mapped, and today they are the toolbox of the genetic engineering industry and even of high school scientists. Zimmer (Evolution: The Triumph of an Idea
    ) explains that by scrutinizing the bacteria's genome, scientists have discovered that genes can jump from one species to another and how virus DNA has become tightly intertwined with the genes of living creatures all the way up the tree of life to humans. Studying starving E. coli
    has taught us about how our own cells age. Advocates of intelligent design often produce the E. coli
    flagellum as Exhibit A, but the author shows how new research has shed light on the possible evolutionary arc of the flagellum. Zimmer devotes a chapter to the ethical debates surrounding genetic engineering. Written in elegant, even poetic prose, Zimmer's well-crafted exploration should be required reading for all well-educated readers.

  • Library Journal

    April 1, 2008
    To display a broad swath of the people, scientific processes, and discoveries involved in biology, science writer Zimmer ("Soul Made Flesh: The Discovery of the Brainand How It Changed the World") describes a common, luxuriantly growing, usually benign gut bacterium, "Escherichia coli", or "E. coli". Easily grown in petri dishes, the species has alter egos that can kill its hosts, making the organism a useful laboratory model to explore the basis of heredity. Zimmer recounts the ingenious experiments performed over the last century, garnering Nobel prizes for those scientists who outlined the textbook diagrams of the biochemical processes that all organisms on Earth share with "E. coli". He effectively counters the proponents of intelligent design concepts by describing the work of evolutionary development scientists who have shown evolutionary processes occurring in "E. coli" within a very short time line. The scientists, their work, and the ethical questions with which they wrestle are sensitively profiled, and Zimmer employs imagery to great effect, leaving the reader with the sense of having attended a well-executed museum exhibit intended for intelligent adults. Recommended for public and academic libraries. [See Prepub Alert, "LJ" 1/08.]Sara Rutter, Univ. of Hawaii at Manoa Lib., Honolulu

    Copyright 2008 Library Journal, LLC Used with permission.

  • Booklist

    April 1, 2008
    Escherichia coli could benefit from better public relations, so poor is its image whenever the bacterium is busted for tainting the food supply. Perhaps its rehabilitation commences with Zimmers account of E. colis crucial role in scientific work, some of whichhas beenrecognizedwith Nobel Prizes. The author of popular works on evolutionary biology (Parasite Rex, 2000), Zimmer describes experiments on E. coli that demonstrated evolution as it happens at the genetic level, whichrepresents just one of several arenas in which the microbe has served as cell biologys guinea pig. As Zimmer recounts, it was used in the revelation of how DNA codes work; in mapping the circuits of metabolism;in the invention of recombinant DNA; and in biotechnology products such as artificial insulin. It has even been used as evidence in litigation about so-called intelligent design curricula, whose champions claimed E. colis flagellum (or tail) as proof of their case. Strong on the logic behind controlled experiments, Zimmer renders an absorbing picture of what E. coli says about the history and future of life.(Reprinted with permission of Booklist, copyright 2008, American Library Association.)

  • New Scientist "A powerful account of the dynamic, complicated and social world we share with this ordinary yet remarkable bug. . . . Exciting, original, and wholly persuasive."
  • Boston Globe "Superb. . . . A quietly revolutionary book."
  • Steven Johnson, author of The Invention of Air "Creepy, mind-twisting, and delightful all at the same time"
  • The New York Times Book Review "Engrossing. . . . Zimmer adroitly links the common heritage we share with E. coli and the emerging horizons of science."
  • New England Journal of Medicine "All in all, Microcosm is a phantasmagoric read that explains how our understanding of the nature of E. coli has helped to unravel the mysteries of our own nature and evolution. The book is impressive for the information it imparts and even more impressive for the ideas it provokes."
  • Seed Magazine "E. coli has provided answers that have reshaped our very definitions of life. Zimmer succeeds in engendering a healthy respect for the bug that lives inside us all."
  • The New York Sun "Engagingly written. . . . [Zimmer's] prose is vivid without being misleading–surely one of the hallmarks of good science writing. . . . We should be sure to heed the lessons of E. coli. Those little stinkers have been around a lot longer than we have, and they have some story to tell."
  • Scienceblogs.com "It's this simple. Carl Zimmer is one our very best science writers. If not the absolute best, bar none."
  • Prospect Magazine "[Microcosm] delivers what a science book should; it reveals the new and re-enchants the old."
  • The Journal of Clinical Investigation "[Zimmer is] an American science writer at the zenith of his profession. . . . [He] has woven a fascinating tapestry, intercalating the energy of world-changing scientific discovery with the fascinating complexity of a well-understood living organism. His work will be welcomed by the scientist and the science enthusiast."
  • Microbe magazine "An educational tour-de-force. . . . [Zimmer] brings remarkable talents to popular science writing: ability to write succinct, lively prose; genius at applying familiar words to replace the jargon of scientific terms; intelligence to grasp complex ideas . . . and instincts of an investigative reporter. These talents are amply exhibited in Microcosm."
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