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Corante Blogs examine, through the eyes of leading observers, analysts, thinkers, and doers, critical themes and memes in technology, business, law, science, and culture.

The Press Will Be Outsourced Before Stopped

Vin Crosbie, on the challenges, financial and otherwise, that newspaper publishers are facing: "The real problem, Mr. Newspaperman, isn't that your content isn't online or isn't online with multimedia. It's your content. Specifically, it's what you report, which stories you publish, and how you publish them to people, who, by the way, have very different individual interests. The problem is the content you're giving them, stupid; not the platform its on."
by Vin Crosbie in Rebuilding Media

Travels In Numerica Deserta

There's a problem in the drug industry that people have recognized for some years, but we're not that much closer to dealing with it than we were then. We keep coming up with these technologies and techniques which seem as if they might be able to help us with some of our nastiest problems - I'm talking about genomics in all its guises, and metabolic profiling, and naturally the various high-throughput screening platforms, and others. But whether these are helping or not (and opinions sure do vary), one thing that they all have in common is that they generate enormous heaps of data.
by Derek Lowe in In the Pipeline

Disrobing the Emperor: The online “user experience” isn't much of one

Now that the Web labor market is saturated and Web design a static profession, it's not surprising that 'user experience' designers and researchers who've spent their careers online are looking for new worlds to conquer. Some are returning to the “old media” as directors and producers. More are now doing offline consulting (service experience design, social policy design, exhibition design, and so on) under the 'user experience' aegis. They argue that the lessons they've learned on the Web can be applied to phenomena in the physical and social worlds. But there are enormous differences...
by Bob Jacobson in Total Experience

Second Life: What are the real numbers?

Clay Shirky, in deconstructing Second Life hype: "Second Life is heading towards two million users. Except it isn’t, really... I suspect Second Life is largely a 'Try Me' virus, where reports of a strange and wonderful new thing draw the masses to log in and try it, but whose ability to retain anything but a fraction of those users is limited. The pattern of a Try Me virus is a rapid spread of first time users, most of whom drop out quickly, with most of the dropouts becoming immune to later use."
by Clay Shirky in Many-to-Many

The democratisation of everything

Over the last few years we've seen old barriers to creativity coming down, one after the other. New technologies and services makes it trivial to publish text, whether by blog or by print-on-demand. Digital photography has democratised a previously expensive hobby. And we're seeing the barriers to movie-making crumble, with affordable high-quality cameras and video hosting provided by YouTube or Google Video and their ilk... Music making has long been easy for anyone to engage in, but technology has made high-quality recording possible without specialised equipment, and the internet has revolutionised distribution, drastically disintermediating the music industry... What's left? Software maybe? Or maybe not."
by Suw Charman in Strange Attractor

RNA Interference: Film at Eleven

Derek Lowe on the news that the Nobel Prize for medicine has gone to Craig Mello and Andrew Fire for their breakthrough work: "RNA interference is probably going to have a long climb before it starts curing many diseases, because many of those problems are even tougher than usual in its case. That doesn't take away from the discovery, though, any more than the complications of off-target effects take away from it when you talk about RNAi's research uses in cell culture. The fact that RNA interference is trickier than it first looked, in vivo or in vitro, is only to be expected. What breakthrough isn't?"
by Derek Lowe in In the Pipeline

PVP and the Honorable Enemy

Andrew Phelps: "Recently my WoW guild has been having a bit of a debate on the merits of Player-vs.-Player (PvP) within Azeroth. My personal opinion on this is that PvP has its merits, and can be incredible fun, but the system within WoW is horridly, horribly broken. It takes into account the concept of the battle, but battle without consequence, without emotive context, and most importantly, without honor..."

From later in the piece: "When I talk about this with people (thus far anyway) I typically get one of two responses, either 'yeah, right on!' or 'hey, it’s war, and war isn’t honorable – grow the hell up'. There is a lot to be said for that argument – but the problem is that war in the real historical world has very different constraints that are utterly absent from fantasized worlds..."
by Andrew Phelps in Got Game

Rats Rule, Right?

Derek Lowe: "So, you're developing a drug candidate. You've settled on what looks like a good compound - it has the activity you want in your mouse model of the disease, it's not too hard to make, and it's not toxic. Everything looks fine. Except. . .one slight problem. Although the compound has good blood levels in the mouse and in the dog, in rats it's terrible. For some reason, it just doesn't get up there. Probably some foul metabolic pathway peculiar to rats (whose innards are adapted, after all, for dealing with every kind of garbage that comes along). So, is this a problem?.."
by Derek Lowe in In the Pipeline

Really BAD customer experience at Albertsons Market

Bob Jacobson, on shopping at his local Albertsons supermarket where he had "one of the worst customer experiences" of his life: "Say what you will about the Safeway chain or the Birkenstock billionaires who charge through the roof for Whole Foods' organic fare, they know how to create shopping environments that create a more pleasurable experience, at its best (as at Whole Foods) quite enjoyable. Even the warehouses like Costco and its smaller counterpart, Smart & Final, do just fine: they have no pretentions, but neither do they dump virtual garbage on the consumer merely to create another trivial revenue stream, all for the sake of promotions in the marketing department..."
by Strange Attractor in Total Experience

The Guardian's "Comment is Free"

Kevin Anderson: "First off, I want to say that I really admire the ambition of the Guardian Unlimited’s Comment is Free. It is one of the boldest statements made by any media company that participation needs to be central to a radical revamp of traditional content strategies... It is, therfore, not hugely surprising to find that Comment is Free is having a few teething troubles..."
by Kevin Anderson in strange
In the Pipeline: Don't miss Derek Lowe's excellent commentary on drug discovery and the pharma industry in general at In the Pipeline

The Loom

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December 03, 2003

Eight Little Piggies Redux

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Posted by Carl Zimmer

In a post last month, I pointed out how aerospace engineers can learn a lot from looking at the fossils of ancient flying reptiles. Today's issue of Nature contains a variation on that theme: ancient swimming reptiles can teach geneticists a lot as well.

Almost all humans have five fingers. Genetic disorders can produce extra fingers and toes, but only rarely. Five fingers is generally the upper limit not just for humans, but for all vertebrates on land. You can find plenty of tetrapods whose ancestors lost one or more of those five fingers. Horses have just one; snakes none. But tetrapods with more than five digits are incredibly rare. In most cases, these aren't true digits--wrists bones or other parts of limbs have evolved into finger-like appendages (the panda's "thumb" made so famous by Stephen Jay Gould, for example). But if you're looking for seven or eight real digits--made of three or four rod-shaped bones extending from the wrist or ankle, you're out of luck.

As Gould pointed out in his essay "Eight Little Piggies" (from his book of the same name), nineteenth century biologists treated this pattern as a geometrical law. Five digits were part of the tetrapod "archetype"--the divine blueprint on which all variations were built. But that turned out not to be the case. In the 1980s, the paleontologists Jenny Clack and Michael Coates discovered that the earliest tetrapods that lived some 360 million years ago--vertebrates with legs and toes--had six, seven, or even eight toes.

At the time, biologists were just starting to figure out how genes build toes--and limbs in general. They also were studying how genes build fish fins, and they found evidence that some simple tinkering with just a handful of genes could turn a cluster of ray-shaped bones in a fin into a wrist complete with fingers. Clack and Coates showed that the way in which the extra fingers were arranged on their eight-fingered fossils was consistent with such a flip. (I summarized the state of this research as of 1998 in my book At the Water's Edge .)

Clack and other paleontologists have discovered more tetrapods from this same early stage, and they have many different arrangements of digits. A lot of evolutionary experimenting was going on, probably in part because mutations could produce radical changes in the limbs of early tetrapods. There weren't yet a lot of the regulatory genes in place for producing the standard five-fingered plan. Only about 20 million years after fins became hands and feet, tetrapods were finally sticking to the plan.

So why did our ancestors eventually settle on five fingers? One possibility is that for walking five fingers are better than six or twelve or any other higher number. Bear in mind that the very earliest tetrapods were more like fish with fingers. They had gills and could not have stood upright on their own limbs, suggesting that they lived mostly underwater. There they clambered over submerged logs and debris, much as frogfish do today. It may be no coincidence that the trend towards a consistent set of five fingers roughly matches the trend towards living ashore. Multiple toes probably helped give tetrapods better balance than just a couple, but there may have been a counterforce that put a cap at five--perhaps five digits are the most that can fit around a wrist or an ankle and still allow an animal to walk on dry land.

It's likely that part of the answer to this question has to do with how genes build the digits. Digits are already beginning to form when the limb is a tiny bud on the side of an embryo. There may be a tradeoff between the size of digits and the number of digits that can form in such a limited space. In order to make digits big enough to support a tetrapod on land, perhaps five is the most that constraints will allow. (Jenny Clack investigates these ideas in her excellent 2002 book Gaining Ground.)

Many of the most powerful genes in the construction of hands and feet also play just as important a role in building the entire skeleton, as well as brains and other organs. Any change in the way they work in a hand can have complicated effects on the way other parts of the body develop. Indeed, when people who have extra fingers or toes often suffer other disorders such as in the eyes or the skeleton. There may even be a connection between polydactyly and cancer. Tetrapods that could regulate the development of their fingers may have been favored by natural selection not only because they could do a better job of walking, but because they didn't get sick.

Maybe. Any hypothesis about the evolution of our hands and feet now has to contend with an intriguing fossil from China reported in Nature. The fossil was formed by an early marine reptile that lived 242 million years ago--over 100 million years after tetrapods had settled on five digits. The researchers report that the reptile (which has yet to be named) had six toes on their hindlimbs and seven on their forelimbs. It harkens back to the earliest tetrapods not only in having extra digits, but in where the digits form. In both the reptile and the earliest tetrapods, the new digits are tacked on to the wrist beyond the thumb.

The scientific report is unfortunately very short. The authors don't even name the creature or investigate what its closest relatives were. That's important to get a handle on how its strange digits evolved. But the paper certainly leaves me hungry for more. The authors point out, for example, that this reptile belonged to a lineage that had returned to the water and suggest that it had converged back on the frogfish-like hands and feet of early tetrapods that had not yet moved on land. Most marine reptiles I know about are more like sharks or dolphins, cruising open water and using their hands as steering paddles. So this particular reptile might represent an intermediate stage from land to sea.

What's even more intriguing is what these fossils say about this reptile's genes. Its extra digits are not malformed like the ones that people get from genetic disorders. That suggests that seven or eight digits was normal for the species, and that this single reptile wasn't a freak of nature. How did this reptile overcome the web of constraining genes that have prevented so many other species from acquiring extra fingers? How did they turn back the clock 100 million years? And why didn't any other known tetrapod that went back to the water (whales, seals, turtles, etc.) turn back the clock this way? The answers to these questions are not just a matter of paleontological curiosity. They may help geneticists understand how our own bodies are built, and how weaknesses are built into its design.

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