Showing posts with label Carl Woese. Show all posts
Showing posts with label Carl Woese. Show all posts

Tuesday, December 3, 2013

An Unusually Creative Place


In 1987 I had the privilege of earning my Ph.D. at the University of Illinois in what was at that time called the School of Life Sciences. Having nothing else to which to compare it at the time, I did not realize what a privilege it was.

At that time, the biology faculty at the U of I included some truly creative thinkers, who were not merely competent at advancing knowledge in their fields but also investigated the connections among different fields of intellectual inquiry. That is, these remarkable individuals contributed greatly to what E. O. Wilson calls consilience. I would just like to mention a few of them here.

One of them was my advisor, the late Fakhri A. Bazzaz. He saw plant ecology as a complex and global set of processes that included human effects on the natural world. He was interested in anything and everything that affected plants and anything and everything that plants did in the world. He brought together graduate students and professional collaborators who were interested in ecophysiology, population genetics, conservation, plant reproduction, coevolution, and global climate change. He was not the world leader in any of these fields, but was incomparable in bringing them together. He was always enthusiastic. His booming happy voice was a mainstay of our lab.

Another unusually creative person at Illinois was the late Carl Woese (see my earlier essay about him). He was good at doing the (at the time) tedious work of determining base sequences of microbial genes. But his goal was to understand the evolution of all of life. This is what led him to recognize the Archaea as a separate line of evolution. But he also speculated about the origin of life and how evolution fit in with the basic physical processes of the universe. I took a seminar from him in which we discussed some basic ideas about evolution, including some possible overlaps with eastern religion and philosophy.

Another such person was Mary Willson, who now lives in Alaska. She first showed her creativity by moving her research interest from birds to plants (which she called “sessile green birds”). She was looking for ideas that united evolutionary lineages as unrelated as plants and birds. One of those was sexual selection. She, along with Nancy Burley, was one of the pioneers in the study of sexual selection in plants. Most of us simply learned about double fertilization in flowering plants, in which one sperm nucleus fertilized an egg nucleus, producing an embryo, while the other sperm nucleus fertilized the two polar nuclei, producing a triploid endosperm. That’s just the way it is. Willson wondered why. If the endosperm is simply a source of food, to be eaten by the embryo, why should it be the product of fertilization? And, moreover, why should it be triploid? Did the double dose of genes from the female parent allow it some extra measure of control over the embryo inside the seed? A recent article in the Proceedings of the National Academy of Sciences provided some evidence that a close genetic relationship between embryo and endosperm facilitated altruism. This astonishing idea had its roots in what Mary Willson had written three decades earlier.

A fourth example is May Berenbaum, who is still a remarkably productive member of the U of I faculty and the National Academy of Sciences. Her enthusiasm for understanding the coevolution of plants and the insects that ate them spilled over into a zeal for opening the eyes of the public to an understanding of insects. She has written numerous popular books about insects, and about 1981 started what has become an annual tradition at the U of I: the Insect Fear Film Festival.


Of course, every faculty member I knew at Illinois in the 1980s was remarkably competent in their fields, a tradition that continues today. But these four individuals stood or stand out for their creativity. As a result, I was inspired to think creatively about the big picture, and to ask big questions, rather than to focus exclusively on a narrow range of research. What a remarkable privilege this experience was.

Sunday, January 27, 2013

The Passing of a Great Scientist (Carl Woese)


Carl Woese died on December 30, 2012. He was the scientist who discovered the archaea, or “archies” (pronounced “arkies”) as we called them when I knew Woese at the University of Illinois. Archies look like bacteria under the microscope, but they usually live in extreme environments, such as deep ocean vents. But, in terms of biochemistry and DNA, archies are as different from bacteria as they are from us; in fact, archies are a little more closely related to humans than they are to bacteria.

Biochemical characteristics marked the archies as unusual: they have a different kind of phospholipid than either eukaryotes or bacteria have, and their DNA is associated with histones, just like that of eukaryotes. But DNA sequence analysis was required to truly demonstrate the uniqueness of archies. Woese was one of the first scientists to do DNA sequencing and apply it to evolution. This was back before PCR and all the other kinds of automation that genomic analysis now has access to. It took Woese the better part of a year to determine a DNA sequence that now can be done overnight. Woese’s work established that archies had a separate line of evolution from that of all other organisms. Based on his work, scientists and scientific amateurs know that life consists of three domains, rather than five kingdoms. We can no longer lump bacteria and archies together into the Kingdom Monera.

When Woese’s work was getting into full swing about 1980, he made a bunch of shirt pins that proclaimed “The 80’s belong to the archies.” This was parallel to the University athletic slogan, “The 80’s belong to the Illini,” referring to the football team. Only Woese’s promise came true.

An important consequence of Woese’s work was the way it fitted together with the insights of Lynn Margulis, who died in 2011. Margulis showed that important cell components (mitochondria in most eukaryotes, and chloroplasts in many protists and most plants) were the evolutionary descendants of bacteria that invaded, then formed a mutualistic partnership with, eukaryotic cells. Since Margulis first demonstrated this, many scientists have concluded that the nucleus itself was a mutualistic invader: an archie that moved into a eukaryotic cell. This would explain the (slight) genetic similarity between archies and eukaryotic nuclei, as well as their shared histones. Woese and Margulis disagreed on many things but most biologists have accepted the insights that both of them revealed and which have revolutionized our view of the history of life.

I took a seminar from Woese about 1982. He was very interested in some of the basic ideas and assumptions of science. As a young grad student (and also going through a period of withdrawal from various forms of creationism), I did not understand much of what we discussed, based as it was on the writings of David Bohm. But Woese was convinced that there was an ecstatic aspect of science, a deep meaning which he associated with a Buddhist view of the universe. (I do not know if he was a practicing Buddhist.) Woese’s view of science opened his mind to creative thinking; he wrote a paper once in which he suggested that life began in the clouds rather than in the ocean. And he questioned assumptions; for example, he said, perhaps there was a first “life state” rather than a first cell.

Many scientific colleagues considered Woese to be unconventional and strange when he first began his work on the archies. But he had at least two decades to see his ideas incorporated into the fundamental understanding of the evolutionary history of life. There is a pedestal outside of the life sciences complex at the University of Illinois commemorating the Archaea that Woese discovered there (see the photo).