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Bacteria, Plasmids, and Phages
An Introduction to Molecular Biology
Edmund C. C. Lin, Richard Goldstein, and Michael Syvanen
Harvard University Press, 1984

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The Black Box of Biology
A History of the Molecular Revolution
Michel Morange
Harvard University Press, 2020

In this masterful account, a historian of science surveys the molecular biology revolution, its origin and continuing impact.

Since the 1930s, a molecular vision has been transforming biology. Michel Morange provides an incisive and overarching history of this transformation, from the early attempts to explain organisms by the structure of their chemical components, to the birth and consolidation of genetics, to the latest technologies and discoveries enabled by the new science of life. Morange revisits A History of Molecular Biology and offers new insights from the past twenty years into his analysis.

The Black Box of Biology shows that what led to the incredible transformation of biology was not a simple accumulation of new results, but the molecularization of a large part of biology. In fact, Morange argues, the greatest biological achievements of the past few decades should still be understood within the molecular paradigm. What has happened is not the displacement of molecular biology by other techniques and avenues of research, but rather the fusion of molecular principles and concepts with those of other disciplines, including genetics, physics, structural chemistry, and computational biology. This has produced decisive changes, including the discoveries of regulatory RNAs, the development of massive scientific programs such as human genome sequencing, and the emergence of synthetic biology, systems biology, and epigenetics.

Original, persuasive, and breathtaking in its scope, The Black Box of Biology sets a new standard for the history of the ongoing molecular revolution.

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Creating a Physical Biology
The Three-Man Paper and Early Molecular Biology
Edited by Phillip R. Sloan and Brandon Fogel
University of Chicago Press, 2011
In 1935 geneticist Nikolai Timoféeff-Ressovsky, radiation physicist Karl G. Zimmer, and quantum physicist Max Delbrück published “On the Nature of Gene Mutation and Gene Structure,” known subsequently as the “Three-Man Paper.” This seminal paper advanced work on the physical exploration of the structure of the gene through radiation physics and suggested ways in which physics could reveal definite information about gene structure, mutation, and action. Representing a new level of collaboration between physics and biology, it played an important role in the birth of the new field of molecular biology. The paper’s results were popularized for a wide audience in the What is Life? lectures of physicist Erwin Schrödinger in 1944.
 
Despite its historical impact on the biological sciences, the paper has remained largely inaccessible because it was only published in a short-lived German periodical. Creating a Physical Biology makes the Three Man Paper available in English for the first time. Brandon Fogel’s translation is accompanied by an introductory essay by Fogel and Phillip Sloan and a set of essays by leading historians and philosophers of biology that explore the context, contents, and subsequent influence of the paper, as well as its importance for the wider philosophical analysis of biological reductionism.
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Darwinian Reductionism
Or, How to Stop Worrying and Love Molecular Biology
Alexander Rosenberg
University of Chicago Press, 2006
After the discovery of the structure of DNA in 1953, scientists working in molecular biology embraced reductionism—the theory that all complex systems can be understood in terms of their components. Reductionism, however, has been widely resisted by both nonmolecular biologists and scientists working outside the field of biology. Many of these antireductionists, nevertheless, embrace the notion of physicalism—the idea that all biological processes are physical in nature. How, Alexander Rosenberg asks, can these self-proclaimed physicalists also be antireductionists?

With clarity and wit, Darwinian Reductionism navigates this difficult and seemingly intractable dualism with convincing analysis and timely evidence. In the spirit of the few distinguished biologists who accept reductionism—E. O. Wilson, Francis Crick, Jacques Monod, James Watson, and Richard Dawkins—Rosenberg provides a philosophically sophisticated defense of reductionism and applies it to molecular developmental biology and the theory of natural selection, ultimately proving that the physicalist must also be a reductionist.

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The Delphic Boat
What Genomes Tell Us
Antoine Danchin
Harvard University Press, 2002
By the end of 2001, almost 500 genome programs were completed or underway. Drawing upon what researchers worldwide are learning from the gene sequences of bacteria, plants, fungi, fruit flies, worms, and humans, Antoine Danchin shows us how genomes are far more than mere collections of genes.
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Gene Sharing and Evolution
The Diversity of Protein Functions
Joram Piatigorsky
Harvard University Press, 2007

"Gene sharing" means that the different functions of a protein may share the same gene--that is, a protein produced by a gene evolved to fulfill a specialized function for one biological role may also perform alternate functions for other biological roles.

In the 1980s and early 1990s, Joram Piatigorsky and colleagues coined the term "gene sharing" to describe the use of multifunctional proteins as crystallins in the eye lens. In Gene Sharing and Evolution Piatigorsky explores the generality and implications of gene sharing throughout evolution and argues that most if not all proteins perform a variety of functions in the same and in different species, and that this is a fundamental necessity for evolution.

How is a gene identified, by its structure or its function? Do the boundaries of a gene include its regulatory elements? What is the influence of gene expression on natural selection of protein functions, and how is variation in gene expression selected in evolution? These are neither new nor resolved questions. Piatigorsky shows us that the extensiveness of gene sharing and protein multifunctionality offers a way of responding to these questions that sheds light on the complex interrelationships among genes, proteins, and evolution.

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Genes in Conflict
The Biology of Selfish Genetic Elements
Austin Burt and Robert Trivers
Harvard University Press, 2008
In evolution, most genes survive and spread within populations because they increase the ability of their hosts (or their close relatives) to survive and reproduce. But some genes spread in spite of being harmful to the host organism—by distorting their own transmission to the next generation, or by changing how the host behaves toward relatives. As a consequence, different genes in a single organism can have diametrically opposed interests and adaptations.Covering all species from yeast to humans, Genes in Conflict is the first book to tell the story of selfish genetic elements, those continually appearing stretches of DNA that act narrowly to advance their own replication at the expense of the larger organism. As Austin Burt and Robert Trivers show, these selfish genes are a universal feature of life with pervasive effects, including numerous counter-adaptations. Their spread has created a whole world of socio-genetic interactions within individuals, usually completely hidden from sight.Genes in Conflict introduces the subject of selfish genetic elements in all its aspects, from molecular and genetic to behavioral and evolutionary. Burt and Trivers give us access for the first time to a crucial area of research—now developing at an explosive rate—that is cohering as a unitary whole, with its own logic and interconnected questions, a subject certain to be of enduring importance to our understanding of genetics and evolution.
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The Hidden Mechanics of Exercise
Molecules That Move Us
Christopher M. Gillen
Harvard University Press, 2014

As anyone who takes up a new sport quickly discovers, even basic athletic moves require high levels of coordination and control. Whether dribbling a basketball or hitting a backhand, limbs must be synchronized and bodies balanced, all with precise timing. But no matter how diligently we watch the pros or practice ourselves, the body’s inner workings remain invisible.

The Hidden Mechanics of Exercise reveals the microworld of the human body in motion, from the motor proteins that produce force, to the signaling molecules that activate muscles, to the enzymes that extract energy from nutrients. Christopher Gillen describes how biomolecules such as myosin, collagen, hemoglobin, and creatine kinase power our athletic movements. During exercise, these molecules dynamically morph into different shapes, causing muscles, tendons, blood, and other tissues to perform their vital functions. Gillen explores a wide array of topics, from how genetic testing may soon help athletes train more effectively, to how physiological differences between women and men influence nutrition. The Hidden Mechanics of Exercise tackles questions athletes routinely ask. What should we ingest before and during a race? How does a hard workout trigger changes in our muscles? Why does exercise make us feel good?

Athletes need not become biologists to race in a triathlon or carve turns on a snowboard. But Gillen, who has run ten ultramarathons, points out that athletes wishing to improve their performance will profit from a deeper understanding of the body’s molecular mechanisms.

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A History of Molecular Biology
Michel Morange
Harvard University Press, 1998

Every day it seems the media focus on yet another new development in biology--gene therapy, the human genome project, the creation of new varieties of animals and plants through genetic engineering. These possibilities have all emanated from molecular biology.

A History of Molecular Biology is a complete but compact account for a general readership of the history of this revolution. Michel Morange, himself a molecular biologist, takes us from the turn-of-the-century convergence of molecular biology's two progenitors, genetics and biochemistry, to the perfection of gene splicing and cloning techniques in the 1980s. Drawing on the important work of American, English, and French historians of science, Morange describes the major discoveries--the double helix, messenger RNA, oncogenes, DNA polymerase--but also explains how and why these breakthroughs took place. The book is enlivened by mini-biographies of the founders of molecular biology: Delbrück, Watson and Crick, Monod and Jacob, Nirenberg.

This ambitious history covers the story of the transformation of biology over the last one hundred years; the transformation of disciplines: biochemistry, genetics, embryology, and evolutionary biology; and, finally, the emergence of the biotechnology industry.

An important contribution to the history of science, A History of Molecular Biology will also be valued by general readers for its clear explanations of the theory and practice of molecular biology today. Molecular biologists themselves will find Morange's historical perspective critical to an understanding of what is at stake in current biological research.

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Life from an RNA World
The Ancestor Within
Michael Yarus
Harvard University Press, 2010

A majority of evolutionary biologists believe that we now can envision our biological predecessors—not the first, but nearly the first, living beings on Earth. Life from an RNA World is about these vanished forebears, sketching them in the distant past just as their workings first began to resemble our own. The advances that have made such a pursuit possible are rarely discussed outside of bio-labs. So here, says author Michael Yarus, is an album for interested non-biologists, an introduction to our relatives in deep time, slouching between the first rudimentary life on Earth and the appearance of more complex beings.

The era between, and the focus of Yarus’ work, is called the RNA world. It is RNA (ribonucleic acid)—long believed to be a mere biologic copier and messenger—that offers us this glimpse into our ancient predecessors. To describe early RNA creatures, here called “ribocytes” or RNA cells, Yarus deploys some basics of molecular biology. He reviews our current understanding of the tree of life, examines the structure of RNA itself, explains the operation of the genetic code, and covers much else—all in an effort to reveal a departed biological world across billions of years between its heyday and ours.

Courting controversy among those who question the role of “ribocytes”—citing the chemical fragility of RNA and the uncertainty about the origin of an RNA synthetic apparatus—Yarus offers an invaluable vision of early life on Earth. And his book makes that early form of life, our ancestor within, accessible to all of us.

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Membranes to Molecular Machines
Active Matter and the Remaking of Life
Mathias Grote
University of Chicago Press, 2019
Today's science tells us that our bodies are filled with molecular machinery that orchestrates all sorts of life processes. When we think, microscopic "channels" open and close in our brain cell membranes; when we run, tiny "motors" spin in our muscle cell membranes; and when we see, light operates "molecular switches" in our eyes and nerves. A molecular-mechanical vision of life has become commonplace in both the halls of philosophy and the offices of drug companies, where researchers are developing “proton pump inhibitors” or medicines similar to Prozac.
 
Membranes to Molecular Machines explores just how late twentieth-century science came to think of our cells and bodies this way. This story is told through the lens of membrane research, an unwritten history at the crossroads of molecular biology, biochemistry, physiology, and the neurosciences, that directly feeds into today's synthetic biology as well as nano- and biotechnology. Mathias Grote shows how these sciences not only have made us think differently about life, they have, by reworking what membranes and proteins represent in laboratories, allowed us to manipulate life as "active matter" in new ways. Covering the science of biological membranes in the United States and Europe from the mid-1960s to the 1990s, this book connects that history to contemporary work with optogenetics, a method for stimulating individual neurons using light, and will enlighten and provoke anyone interested in the intersection of chemical research and the life sciences—from practitioner to historian to philosopher.

The research described in the book and its central actor, Dieter Oesterhelt, were honored with the 2021 Albert Lasker Basic Medical Research Award for his contribution to the development of optogenetics. 
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Molecular Capture
The Animation of Biology
Adam Nocek
University of Minnesota Press, 2021

How computer animation technologies became vital visualization tools in the life sciences

Who would have thought that computer animation technologies developed in the second half of the twentieth century would become essential visualization tools in today’s biosciences? This book is the first to examine this phenomenon. Molecular Capture reveals how popular media consumption and biological knowledge production have converged in molecular animations—computer simulations of molecular and cellular processes that immerse viewers in the temporal unfolding of molecular worlds—to produce new regimes of seeing and knowing.

Situating the development of this technology within an evolving field of historical, epistemological, and political negotiations, Adam Nocek argues that molecular animations not only represent a key transformation in the visual knowledge practices of life scientists but also bring into sharp focus fundamental mutations in power within neoliberal capitalism. In particular, he reveals how the convergence of the visual economies of science and entertainment in molecular animations extends neoliberal modes of governance to the perceptual practices of scientific subjects. Drawing on Alfred North Whitehead’s speculative metaphysics and Michel Foucault’s genealogy of governmentality, Nocek builds a media philosophy well equipped to examine the unique coordination of media cultures in this undertheorized form of scientific media. More specifically, he demonstrates how governmentality operates across visual practices in the biosciences and the popular mediasphere to shape a molecular animation apparatus that unites scientific knowledge and entertainment culture.

Ultimately, Molecular Capture proposes that molecular animation is an achievement of governmental design. It weaves together speculative media philosophy, science and technology studies, and design theory to investigate how scientific knowledge practices are designed through media apparatuses.

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The New Biology
A Battle between Mechanism and Organicism
Michael J. Reiss
Harvard University Press, 2023

In this accessible analysis, a philosopher and a science educator look at biological theory and society through a synthesis of mechanistic and organicist points of view to best understand the complexity of life and biological systems.

The search for a unified framework for biology is as old as Plato’s musings on natural order, which suggested that the universe itself is alive. But in the twentieth century, under the influence of genetics and microbiology, such organicist positions were largely set aside in favor of mechanical reductionism, by which life is explained by the movement of its parts. But can organisms truly be understood in mechanical terms, or do we need to view life from the perspective of whole organisms to make sense of biological complexity?

The New Biology argues for the validity of holistic treatments from the perspectives of philosophy, history, and biology and outlines the largely unrecognized undercurrent of organicism that has persisted. Mechanistic biology has been invaluable in understanding a range of biological issues, but Michael Reiss and Michael Ruse contend that reductionism alone cannot answer all our questions about life. Whether we are considering human health, ecology, or the relationship between sex and gender, we need to draw from both organicist and mechanistic frameworks.

It’s not always a matter of combining organicist and mechanistic perspectives, Reiss and Ruse argue. There is scope for a range of ways of understanding the complexity of life and biological systems. Organicist and mechanistic approaches are not simply hypotheses to be confirmed or refuted, but rather operate as metaphors for describing a universe of sublime intricacy.

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Rendering Life Molecular
Models, Modelers, and Excitable Matter
Natasha Myers
Duke University Press, 2015
What are living bodies made of? Protein modelers tell us that our cells are composed of millions of proteins, intricately folded molecular structures on the scale of nanoparticles. Proteins twist and wriggle as they carry out the activities that keep cells alive. Figuring out how to make these unruly substances visible, tangible, and workable is a challenging task, one that is not readily automated, even by the fastest computers. Natasha Myers explores what protein modelers must do to render three-dimensional, atomic-resolution models of these lively materials. Rendering Life Molecular shows that protein models are not just informed by scientific data: model building entangles a modeler’s entire sensorium, and modelers must learn to feel their way through the data in order to interpret molecular forms. Myers takes us into protein modeling laboratories and classrooms, tracking how gesture, affect, imagination, and intuition shape practices of objectivity. Asking, ‘What is life becoming in modelers' hands?’ she tunes into the ways they animate molecules through their moving bodies and other media. In the process she amplifies an otherwise muted liveliness inflecting mechanistic accounts of the stuff of life.
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Symbiogenesis
A New Principle of Evolution
Boris Mikhaylovich Kozo-Polyansky
Harvard University Press, 2010

More than eighty years ago, before we knew much about the structure of cells, Russian botanist Boris Kozo-Polyansky brilliantly outlined the concept of symbiogenesis, the symbiotic origin of cells with nuclei. It was a half-century later, only when experimental approaches that Kozo-Polyansky lacked were applied to his hypotheses, that scientists began to accept his view that symbiogenesis could be united with Darwin's concept of natural selection to explain the evolution of life. After decades of neglect, ridicule, and intellectual abuse, Kozo-Polyansky's ideas are now endorsed by virtually all biologists.

Kozo-Polyansky's seminal work is presented here for the first time in an outstanding annotated translation, updated with commentaries, references, and modern micrographs of symbiotic phenomena.

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