Category Archives: evolution

Toxoplasmosis Extravaganza: Ride Complete!

So, this week at Darwin Eats Cake, we celebrated our one-year anniversary with a series of nine strips on the zooparasite Toxoplasma gondii. This parasite, which causes Toxoplasmosis, is the reason why pregnant women are encouraged to avoid cat litter.

Here’s the full series, presented for your one-stop-shopping viewing pleasure. The strips do not, I think, assume any expert biological knowledge, so you don’t need to be a parasitologist to enjoy them. However, a dorky and juvenile sense of humor will help a lot. Alternatively, you can read them on the Darwin Eats Cake website, where they look a little better, I think. The series starts at http://www.darwineatscake.com/?id=101.

At this point, Darwin Eats Cake will return to its regular programming schedule, with twice-a-week updates, usually on Mondays and Thursdays, except for those days that have been recognized as official holidays by the Darwin Eats Cake Council of Freeholders and its chairwoman, the duly elected Queen of Naboo.

So, stop by on Monday for a new strip, or any time to trawl the archive: http://www.darwineatscake.com.





It’s Toxoplasmosis week at Darwin Eats Cake

So, tomorrow (March 13) marks the one-year anniversary of the launch of my webcomic Darwin Eats Cake on its very own website (here). Normally, Darwin Eats Cake updates approximately twice a week (hemicircaseptanally), on approximately Monday and Thursday (circa-Mondarily and circa-Thursdarily, I assume). However, to mark this special anniversary occasion, we are rolling out a daily series of strips on Toxoplasma gondii, the parasite responsible for Toxoplasmosis. This bug was recently in the news thanks to a profile of Jaroslav Flegr published recently in the Atlantic (here).

Here are the first two of this week’s six strips:

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And remember: Sharing is Caring!

Clarification re: "Hot like Mexico"

So, I just got back from the Colorado School of Mines (And boy are my picks tired!!!), where I was speaking about the Ronin Institute. One of many wonderful things about the trip was the opportunity to meet Alejandro Weinstein, who has been featured twice on Guillaume’s Mailbag over at Darwin Eats Cake. Following a conversation with him, I wanted to clarify something regarding the following strip:

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Alejandro apparently took the third frame of the comic to mean that Guillaume thought that he was from Mexico. I asked Guillaume about this, and he said no, that with a name like “Alejandro Weinstein,” he had assumed that Alejandro was from Argentina. It turns out that Alejandro actually hails from Chile, which is sort of the Argentina of the west coast of South America, so, he wasn’t too far off, really.

Guillaume went on to explain that, actually, “hot like Mexico” and “cool the bad” are references to the lyrics of the Lady Gaga song “Alejandro.” Guillaume had assumed that this was common knowledge, at least until I pointed out to him that the set of people with a high degree of fluency in Lady Gaga lyrics probably shares little overlap with the set of people who read Darwin Eats Cake.
Anyway, Guillaume felt bad about the misunderstanding, and asked me to address it here.
On a related note, Guillaume’s Mailbag is still accepting submissions. Send in any biological trait of any species, and Guillaume will provide an adaptationist explanation for its evolutionary origin. You can reach him at guillaume@darwineatscake.com

The Genetical Book Review: The Postmortal

So, welcome to the first Genetical Book Review of 2012, where we’re going to talk about The Postmortal, by Drew Magary. As the book starts, Science!™ has developed a cure for aging, so that people can live forever. What follows is an exploration of the psychological and sociological consequences of immortality.

I love this picture. You can almost hear Death going, “D’oh.”

I don’t think I’m giving anything away when I tell you that the book winds up being predominantly dystopian. Basically, if you are the sort of person who frets about the future of humanity, who is prone to think things like, “How could I possibly bring a child into this world,” well, don’t read this book. At least, don’t read it in bed after a spicy take-out meal.

If you do enjoy the occasional sci-fi dystopia, this one is of the variety where you make only a small technological (or, in this case, medical) change, and explore the implications in a world that is otherwise very much like our own. One of the interesting things that the author gets to do with this particular premise is to follow history over many decades through the eyes of a single, first-person narrator. So, the protagonist experiences technological and societal changes that would normally take place over the course of generations.

The book is presented as a series of blog posts, some of which are personal, narrative entries, and some transcripts of news reports, others link roundups, and so on. Magary is a contributing editor at Deadspin, and his reporting / media background shows through in the writing. The whole book is engaging, but the writing really shines in the news bits, which are pitch-perfect.

In the book, the cure for aging is achieved through gene therapy, targeted at a single locus, which seems to be closely linked to MC1R, the gene most commonly responsible for redheadedness. What we’re going to use this as a jumping-off point to talk about different evolutionary theories of aging, and the extent to which each might be consistent with the existence of a single gene serving as a master control over the aging process.

In The Postmortal, the cure for aging is discovered serendipitously as a byproduct of research aimed at changing hair color. In our actual dystopia, it would have gone differently. Benjamin Button would have been indefinitely detained under NDAA and selectively bred with normal humans. A series of backcrosses would have been used to isolate the gene responsible for his aging reversal. 

But first, a couple of quibbles.

Quibble number 1. There are two biologists who feature prominently in the book: father and son Graham and Steven Otto. Now, I’m not going to argue sexism on the basis of a sample of two, since, even in a world with full gender equality, a random sample of two scientists would both be male about 1/4 of the time (p = 0.25). However, Graham Otto’s devoted wife (and Steven Otto’s loving mother) is (apparent) non-scientist Sarah Otto. It just so happens (presumably unbeknownst to Magary) that there is a real-life Sarah Otto, a prominent biologist who was just awarded a Macarthur “genius” grant. So, that’s . . . unfortunate.

Quibble number 2. The “cure for aging” as presented in the book arrests an individual at whatever age they are when they receive the cure, whether it is three or eighty-three. This actually conflates two different processes: development and senescence. My biological intuition is that, even in the simplest conceivable case, there would be at least two distinct master switches controlling these very different processes. (Actually, possibly a third switch as well, controlling puberty and the onset of secondary sexual characteristics, as distinct from growth to adult size and shape.)

In talking about evolutionary theories of “aging,” I will focus on evolutionary theories of senescence, which is really the most important aspect of “aging” with respect to this book.

[Note: none of this should be interpreted as a criticism of the premise or execution of the book, which I loved. The inherent power of science fiction comes from the idea that you build a world that differs from our own. Rather, as always with The Genetical Book Review, the book’s premise serves as an excuse and a specific context for talking about evolution.]

Basically, there are three major classes of ideas about the evolutionary origins of senescence, which have different implications for how much and how easily natural selection or medical intervention might be able to extend our lifespans. As is often the case, these different theories are not necessarily mutually exclusive or incompatible, but rather have different emphases. Most consistent with the premise of the book are theories that propose a positive adaptive value to senescence and mortality. Somewhat less consistent are theories that focus on senescence as a byproduct of the fact that natural selection becomes weaker for traits that are expressed later in life. Least consistent are theories suggesting that senescence and lifespan are profoundly constrained by biological universals. We’ll take each of these in turn.

Just as youth is wasted on the young, discounts are wasted on the elderly.

1) Senescence as an adaptation.

The idea that there could be a single genetic master switch controlling senescence is most plausible under models where aging and death are specifically adaptive. How would that work, you ask. I mean, after all, the whole idea behind natural selection is that is favors surviving and reproducing, right? Well, in some models, you can actually identify conditions where it makes sense beyond a certain age for adults to go ahead and die. One particular model (cited below) describes an adaptive benefit (at the group / inclusive fitness level) to senescence from limiting the spread of disease.

Perhaps somewhat more generally applicable are models in which senescence is selectively favored as part of a trade off. The idea is that it would be possible to construct a human who lived to be, say, 150, but that it could only be achieved through some sort of compensatory change in another trait. Candidate examples would be size or reproductive output. In fact, all else being equal, smaller humans do tend to live longer than larger ones. Similarly, there are a handful of studies purporting to show that abstaining from reproduction extends lifespan.

In this sort of case, it is easy to see how natural selection might actually favor earlier senescence. To first order, what matters to evolution is how many offspring you produce. If you can grow big and have lots of kids, you’re going to win the evolutionary race, even if it means that you drop dead of a heart attack at thirty-five.

Under one of these models, it is easy to imagine the existence of one or a few genes that function as controllers, or strong modifiers, of senescence. Under the strongest version, you can even imagine a gene affecting only senescence. Under the weaker, trade-off version, it might be possible to dramatically extend lifespan, but not without side effects. Maybe the immortals would all weigh eighty pounds and have dramatically – or indefinitely – delayed onset of reproductive capacity.

In a world dominated by evolutionary trade-offs, the immortals will all be Romanian.

2) Senescence as the absence of selection.

Imagine one trait that affects the probability that you survive to age ten. Now imagine a second trait that affects the probability that you survive from ten to twenty. Whatever selection is acting on the second trait, it has to be weaker than what is acting on the first one. The reason is that the second trait is under selection only in that subset of the population that survives to be ten.

This argument, of course, blends into the trade-off argument introduced earlier. We can imagine traits that trade off health (and survival) at later ages in exchange for enhanced health at earlier ages. In general, such traits will tend to be favored. Basically, it doesn’t matter how robust you are at eighty if you die at twenty.

Even without such tradeoffs, however, we expect to see natural selection growing weaker with age. Given any rate of death (due to choking on litchi nuts, falling off cliffs, being eaten by tigers, whatever), there will be more people alive at age x than at age x + y, for any y > 0. So, the older you are, the less power natural selection has to fight against entropy – both the familiar entropy of the physical world and the evolutionary entropy of the mutation process.

Some of the evidence in support of this idea comes from the fact that there are certain species that tend to live longer than expected. Included among these are birds, porcupines, and humans. What do those have in common? The reason in each case is different, but each has a reduced rate of predation. If you reduce the death rate, you increase the power of selection to slow down the aging process.

One consequence of this is that we expect all of the different systems that make up our bodies to fail at similar rates. For instance, if the human heart just gives out after 100 years, any and all selection goes away for maintaining anything else (brain, kidneys, liver, etc.) for longer than that. This perspective suggests that there will not be a single tweak that could stop aging. Rather, it would require a whole bunch of tweaks, or maybe something more like a Never-Let-Me-Go-style organ harvesting scheme.

3) Senescence as a fundamental constraint.

These ideas come from the existence of certain universal scaling laws, regularities in the relationship between features like body mass, metabolic rate, and lifespan. There are a lot of ideas out there, but what, exactly, is driving these relationships is not yet understood. However, the relationships themselves seems to be fairly robust.

One of the striking findings in this area is the fact that, among species with a heart, an individual’s lifespan corresponds to about 1.5 billion heartbeats. Small species have fast metabolic rates, fast heartbeats, and short lives. Large species live slower and longer.

Once again, these ideas are not mutually exclusive with the “rates of predation” idea. In fact, when we say that species like birds and humans live “longer than expected,” these scaling relationships determine what “expected” is. For instance, a human with a heartrate of 72 beats per minute might live to have about 3 billion heartbeats.

Whatever the origin of these patterns, their apparent universality suggests the existence of very deep constraints on our biology. While natural selection (or medicine) might be able to alter our lifespans, it may be that such intervention is limited to relatively small changes, maybe a factor of two. Perhaps something human sized that could live for many hundreds of years would have to be based on a fundamentally different biological architecture.

Following the 2012 Mayan-Zombie/Santorum-Paul apocalypse, humans and other land-based vertebrates will become extinct. Eventually, cephalopod-based land dwellers will eventually emerge to fill our vacated ecological niche.
Perhaps they will live longer. Image via Chowgood’s Deviant Art page.

So, overall, I think the likelihood of a single medical advance that dramatically increases our natural lifespans is pretty remote. But, as you’ll see if you read the book, that might be for the best.

Here are just a few references to get you started if you are interested in the evolutionary constraints on lifespan and senescence.

Glazier, D. (2008). Effects of metabolic level on the body size scaling of metabolic rate in birds and mammals Proceedings of the Royal Society B: Biological Sciences, 275 (1641), 1405-1410 DOI: 10.1098/rspb.2008.0118

Mitteldorf J, & Pepper J (2009). Senescence as an adaptation to limit the spread of disease. Journal of theoretical biology, 260 (2), 186-95 PMID: 19481552

Williams, G. C. (1957). Pleiotropy, Natural Selection, and the Evolution of Senescence Evolution, 11 (4), 398-411

Well, that’s all for today! Check back again soon, as The Genetical Book Review will be posting more frequently in 2012.

Buy it now!!

What’s that? You say you want to buy this book? And you want to support Lost in Transcription at the same time? Well, for you, sir and/or madam, I present these links.

Buy The Postmortal now through:

Amazon

Barnes and Nobleicon

indiebound

Alibris

On Ronin and the importance of physical colleagues

So, welcome back to my intermittent live-blog of my adventures in forming a non-profit research institute in order to function as an independent scholar. I’ve written a couple of times before: about my own goals for the enterprise, and about the things that an independent scholar will most be in need of.

One of the things, of course, that an independent scholar needs is colleagues. Depending on the nature of your research, you might be able to do the day-to-day work (math and programming, in my case) entirely on your own, but unless you are a very special sort of misanthropic genius, you need interaction with a set of colleagues. Sometimes you will want to take on collaborative projects that require the expertise of more than one person, but even more, you need knowledgeable people to bounce ideas off of, people who will ask the critical questions that make your work better, or who will drop some jewel of knowledge that lets you see the problem you’ve been working on in an entirely new way.

Now, in principle, much of this can be accomplished on the internet, but I am wondering if there are not certain types of information that more or less require face-to-face contact.

Last week, I was at a “catalysis meeting” at NESCent (the National Evolutionary Synthesis Center) on genomic imprinting. The meeting was superb. It had excellent people who work on the problem from all different perspectives: theorists and experimentalists, molecular and developmental biologists, mouse people, marsupial people, bee people. I learned a ton, and, perhaps more importantly, I learned of the existence of a bunch of things that I didn’t know. I still don’t know them, but now I know that I should know, and I know where to start looking, and whom to ask for help when I get stuck.

As an aside, I also had the chance to meet Craig McClain, Assistant Director of Science at NESCent and doyen of the group blog Deep Sea News. He was as nice as their blog is awesome.

Some people say that biologists grow to resemble the organisms that they study. You be the judge.

You might think that meetings like this are particularly efficient for transmitting information, but that you can accomplish the same thing through more aggressive and far-reaching readings of the literature. After all, the organizers of the meeting were able to find these people. In principle, I could just get all of their papers and read them carefully, referring to textbooks on biochemistry or mammalian physiology whenever there was something I didn’t understand.

But I’m not sure that would actually work.

The thing is, some of the most important pieces of information I got at the meeting were things that are not written in papers, or perhaps anywhere, nor are they likely to be. For example, there were a number of people there who have spent years working with lab mice. They have observed thousands and thousands of crosses (e.g., the outcome of a mother of one mouse strain mating with a father of a different mouse strain). This has given them a deep knowledge of what does and does not happen in these crosses, as well as a sense of how sensitive different traits are to the details of the experimental procedure.

An interesting thing was that there were certain results from the scientific literature that none of these people believe, because they are not consistent with their own observations. Now, no one has gone and written a rebuttal letter, or published a set of negative results contradicting the original papers. They have all just sort of implicitly agreed that results using a certain technique, or sometimes results coming from a certain lab, are unreliable, and they move forward with their research as if those results did not exist.

So, there is this substratum of knowledge that is widespread among experts, but which does not find its way into print. In part, this is due to the thanklessness of writing response letters and publishing negative results. In part, I think, it results from a sense of decorum / political consideration. It is common for scientists to have opinions that whole swaths of research are garbage, and it is common for them to share this knowledge in conversation, particularly over beer. However, most are too cautious to put their genuine opinions down in writing — even in e-mail.

As the good folks at Gawker say, “Today’s gossip is tomorrow’s news!”

Fundamentally, I don’t think that there is anything wrong with this arrangement, as it maintains a pretty high bar for calling someone out for doing bad science, but permits people to move forward with what they collectively perceive to be the best possible information. However, it does point to the importance of getting out there and interacting with people face to face. Otherwise, you may find yourself developing a whole research project that is predicated on some results that no one thinks are true.

I should note that this problem is not unique to the independent scholar. If you are working in a typical university department, there may not be anyone else in your department — or only a small number of people — whose research is close enough to your own that you share the same scuttlebutt. That is, no matter who you are, you need to make sure that you pursue opportunities to talk informally — and in person — with the people who care about the same things that you do.

One last observation from the NESCent meeting. This was the first scientific meeting I have attended under my official affiliation with the Ronin Institute. This meant that people would look at my name tag and ask me about it. I would tell them briefly about the idea and my plans for Ronin, and they were all very enthusiastic. The people who had come over from England, in particular, tended to comment on how very brave I was. After I got back, I came a cross this translation guide:

If you work with anyone British, you should print this out and carry it around with you. It serves as a handy guide as to whether you need to be punching them in the nose.

I’m going to assume that this is just wrong. Let’s posit that a better translation for “That is a very brave proposal” would be “Wow! You are a singular genius and an inspiration to children around the world! Also very sexy! Mee-yow!”

Welcome back to the obscurity

So, I just got back from a NESCent catalysis meeting, and boy is the free energy of my transition state reduced!

There’s been a lack of bloggage over the past week, since I was actually off doing some science, or, rather, talking with people who have been doing actual science. When you’re a theorist, it’s a fine line.

[Note to self: include clever transition here before posting.]

Which brings us, obviously, to the latest two Darwin Eats Cake strips, which feature abusively obscure equation-themed humor:

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Nothing in Biology Makes Sense

So, we’re on a somewhat restricted publication schedule here at Lost in Transcription, as we are entering Day 4 of no power following Saturday’s “Snoctogeddon.” Still not clear how many more days until the lights (and heat) come back on, or how long every place with WiFi will be overrun with laptop refugees.

In the meantime, let me point you to a new group blog, which takes it’s name from Theodosius Dobzhansky’s famous quotation, “Nothing in biology makes sense except in the light of evolution.” I wrote about the origin of the quotation here, and featured this anagram-themed Darwin Eats Cake strip:

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The new blog’s name is “Nothing in Biology Makes Sense,” and features the even something-er URL http://nothinginbiology.org/. It features writing from Simone Des Roches, Devin Drown, Sarah Hird, CJ Jenkins, Noah Reid, Chris Smith, Luke Swenson, Jeremy Yoder, and Jonathan Yoder (the fightin’ Yoders!).

The venture is only a few weeks old, but features veteran bloggers, and already has some really interesting posts.

Read it!

Evolutionary Psychology Freudian slip

So, here’s something that’s a little bit awesome.  At least it’s awesome if you’re the type of Evolutionary Biologist who likes to poke fun at Evolutionary Psychology. Which is to say, if you’re an Evolutionary Biologist.

If you go to John Tooby’s webpage, and click on the link labeled “Advanced Theory and Method in Evolutionary Psychology,” you get this:

Hat tip to someone whose name I won’t post here, lest it should negatively impact his and/or her job prospects.

Gilbert Harman plagiarism piece on Marc Hauser back up

So, a few weeks ago, I linked to a short piece written by Princeton Philosophy Professor Gilbert Harman in which Harman made the case that Marc Hauser’s book Moral Minds plagiarized the ideas of a young researcher named John Mikhail.

Then, suddenly, the Harman piece disappeared. Harman commented that he had not meant for the piece to go public. He had posted it to his website in order to get comments from a small circle of colleagues. When it received wider attention, Harman pulled it down so that he could give his ideas some more thought before publicizing his accusations.

Well, an expanded version of the piece is now back up. You can read it here. I haven’t diffed the files, but it looks like the original piece is still there, with some additional discussion at the end.

Connoisseurs of academic scandal, enjoy.

Hat tip to Laila Waggoner.

Edit: Post title had Marc Harman instead of Marc Hauser. Der . . .