The Wisdom of the Mailbox

I have been grievously mum in response to the many comments that readers have been sending to the Loom. My silence is not hostile–it is the result of way too much traveling, too much magazine writing, and the standard sleep deprivation that comes with life with two young daughters. In fact, reading comments is one of the favorite things I like about this blog.

As a case in point, today Nick at explored the link between the subject of two recent posts: the ongoing adaptation of bacteria to manmade pollutants and the ongoing pollution of biology education with creationist distractions:


Well, I don’t have a poem, but I would like to mention that the evolution of catabolic pathways is the perfect example of the evolution of “irreducible comlexity” in modern times, which as you will recall is exactly the thing that the Intelligent Design folks say can’t evolve.

(1) These catabolic pathways typically break down “xenobiotic” compouds that humans have only recently introduced into the environment

(2) These compounds are typically environmentally persistent toxins. Sometimes they are pesticides or herbicides, or by-products of other nasty compounds like explosives. Much of the the research on the evolution of the degradation pathways is done by military-funded labs, because the military has a big problem with polluted ground on military bases where chemical weapons, explosives, etc. were stored.

(3) The degradation pathways typically have multiple required proteins in the breakdown process. Often the compounds contain e.g. aromatic rings protected by tightly-binding atoms such as chlorine, and stripping off the chlorines and then breaking open the rings are all required before a non-toxic “eat-able” carbon chain is produced.

Some example papers:
* Copley, S. D. (2000). Evolution of a metabolic pathway for degradation of a toxic xenobiotic: the patchwork approach. Trends in Biochemical Sciences V25(N6): 261-265. Source:

* Johnson, G. R., Jain, R. K. and Spain, J. C. (2002). Origins of the 2,4-Dinitrotoluene Pathway. Journal of Bacteriology 184(15): 4219-4232. Source:

* (Atrazine pathway evolution) Sadowsky, M. J., Tong, Z., de Souza, M. and Wackett, L. P., 1998. AtzC is a new member of the amidohydrolase protein superfamily and is homologous to other atrazine-metabolizing enzymes. J Bacteriol. 180 (1), 152-158. URL:

* (Atrazine pathway evolution) Seffernick, J. L. and Wackett, L. P., 2001. Rapid evolution of bacterial catabolic enzymes: a case study with atrazine chlorohydrolase. Biochemistry. 40 (43), 12747-12753. URL:

The McAdams et al. Nature Reviews Genetics paper you linked to mentions studies like these, and also last year’s paper in Nature by Lenski et al. that did a computer simulation of the evolution of an “irreducibly complex” system. McAdams et al. don’t miss the chance to take a swipe at Intelligent Design:

These experiments are particularly valuable as they show how straightforward evolutionary mechanisms of mutation and selection can produce steady increases in organism complexity without invoking ‘intelligent design’.

So far, the ID folks seem to be saying that the computer simulation is irrelevant for [insert obscure hair-splitting here], and they seem to hope that if they completely ignore the studies on the evolution of catabolic pathways for xenobiotic compounds, the studies will just go away. I would not bet on their strategy over the long term. But then again, the ID folks appeal entirely to the public and avoid discussions with the relevant scientific experts like the plague, and their strategy seems be having some success lately. I’m glad that there are at least a few people like Carl Zimmer around to help get the word out.



Thanks for the connection and the sources, Nick.

0 thoughts on “The Wisdom of the Mailbox

  1. Carl, I hate to be cynical, but do the facts really matter to people who believe in Intelligent Design?

    Who’s the audience for these kinds of critiques, which, while useful and pointed, seem self-evident to me?

    Is Gregg Easterbrook going to read something like this and say, “You know what, maybe I’m just full of it after all…”

  2. The audience, in my opinion, are people who are read about attacks on evolution in the newspaper and want to find out the ways in which evolution is actually deeply embedded in modern biology. I suspect there are a lot of folks who fit that category.

  3. I agree with your comments Carl, but I would like to add I have a dear friend in Ohio, very smart, but conservative and religious and she thinks ID in Ohio is just fine – evolution is ‘just a theory’ and what about those flies and such?

    The point being she doesn’t want to take the time and has made up her mind – she’s listening to the church people’s rhetoric. She doesn’t see anything to fight for.

    So there have to be proxies in the fight, and I appreciate Carl’s (and other’s) efforts.


  4. Wow, I made Carl Zimmer’s blog! Thanks! BTW, we’ve added your blog to the Good Evolutionist Blogs page at EvoWiki, the Evolution Education Wiki.

    For a recent example of Intelligent Design silliness, see today’s post by William Dembski wherein he accusses all evolutionists of laziness. In support of this he appends a news article on drug development that doesn’t seem to have any particular connection to evolution as far as I can tell. We report, you decide…

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