Corante: technology, business, media, law, and culture news from the blogosphere
OUR PUBLICATIONS:
Corante is a trusted, unbiased source on technology, business, law, science, and culture that’s authored by leading commentators and thinkers in their respective fields. Corante also produces premium conferences and publications that help decision-makers better understand their industries and the world around them.
Corante Blogs
Corante Blogs examine, through the eyes of leading observers, analysts, thinkers, and doers, critical themes and memes in technology, business, law, science, and culture.
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
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
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
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
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
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
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
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
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
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
Corante Developments
Here you will find the latest news from Corante including updates on upcoming events, new initiatives, product and publication launches, and more.
It was with shock that I returned home from a night out last night to hear the news of Russell's passing. How terribly, terribly sad. Most of all for him, as he'd seemed buoyant, healthier, and content when I'd last seen him several months ago when he was in town - he was happy that work was busy and rewarding and was having fun with it but most of all was thrilled about how things were going with his girlfriend, Ellen.
I've known Russ for what seems like ages now (in a good way) though in fact it's only been about six or seven years since the early days of "commercial" blogging when he started working on various projects at and around Corante. He was a diligent, committed, and prolific journalist who had impressively and more ably than others been able to make the transition from the old-school way of doing things to the new. He had his quirks, as we all do, but I greatly valued that he was good-natured, collegial, reliable, quick to adopt, trustworthy, eager to learn, and earnest in his interest in helping others better understand what he wrote about.
He was also, it should be said, a kind and thoughtful soul and it was the rare conversation in which he didn't ask, with sincerity, about what he knew of my life, e.g. our new babe, and we didn't talk as seemingly old friends about our lives and respective paths. I can't say I knew him very well, of course, but in our half-dozen get-togethers over the years and dozens of conversations I got a good sense of the man: he cared about learning and sharing and his bearing was earnest and ego-less and we'll miss him for that and more.
We wanted to let you know about a discount to New Comm Forum, the annual event event put on by our friends at the Society for New Communications Research. The conference, which runs from April 22-25, will feature many of the field's leading observers and is an important event for those looking, in the words of SNCR, to "better understand new communications tools, technologies and emerging modes of communication, and their effect on traditional media, professional communications, business, culture and society."
Check out the event's website and, if you're interested in attending, be sure to use the code supplied below for a special discount.
EARLY BIRD PRICING - NOW UNTIL FEB. 15th
NewComm Forum Conference - $995.
Pre-conference or post-conference session - $195.
SNCR Jam only - $75.
REGULAR PRICING - AFTER FEB. 15th
NewComm Forum Conference - $1095.
Pre-conference or post-conference session - $249.
SNCR Jam only - $75.
CORANTE READER DISCOUNTS
NewComm Forum Conference - save an additional $100
Use discount code: NCF08100
Pre-conference or post-conference session - save an additional $45.
Use discount code: NCF0845
We've been remiss in letting you know about two new independent blogs we've helped launch in the past month or so.
The first - the ConversationHub - is a companion blog to Supernova 2007, the latest edition of Kevin Werbach's excellent conference on all things connected. As the conference site says: "Supernova examines the effects of an increasingly connected world on business, life, and public policy. As disparate physical and social networks link with one another, a new societal network is rapidly evolving... The New Network is greater than the sum of its parts. It challenges us to re-create everything from the software and hardware we use...to the business models we employ...to the information and entertainment we encounter...to the ways we work and play."
Visit the ConversationHub and you'll find several dozen leading thinkers and doers, led by a few notable ringleaders, weighing in on the themes and trends of the day in technology and business. We encourage you to tune in - feel free to comment and even suggest topics and ideas for posts.
The second blog - Mobile Messaging 2.0 - convenes about a dozen top observers of the mobile messaging space for an intense discussion of the industry and where it's headed. Among its contributors are leading commentators, journalists and players in the field - tune in and you'll find them touching on topics such as mobile device design, messaging platforms, market pressures, user-generated content, interface design, and much, much more.
Also, if you visit the site, which is sponsored by Airwide Solutions, this week, you'll find live coverage and commentary from Global Messaging 2007, to which several of our contributors have traveled to hear about the latest developments from a broad spectrum of the industry's players and providers.
Be sure to catch the Office 2.0 Conference and hear from and engage with leading thinkers and doers in this exciting new market. Find out more here and be sure to use the code "GLDRK" for a special discount for Corante readers.
In the Pipeline: Don't miss Derek Lowe's excellent commentary on drug discovery and the pharma industry in general at In the Pipeline
In my last post, I wrote about how our genes work in networks, much like circuits made of elements wired together in various ways. As genes are accidentally duplicated, mutated, and rewired, old networks can give rise to new ones. It's pretty clear our ancestors could have never become particularly complex if not for this sort of network evolution. As they acquired nerves, muscles, and other tissues, animals needed to organize more and more genes into new circuits. But in saying this I don't mean to imply that single-celled microbes, such as bacteria, live without gene networks. Far from it. In fact, in many ways bacteria are more adept at network engineering than we are.
Evolution has engineered the networks of bacteria with many of the same tricks that produced our own. As one bacterium divides into two, all sorts of mistakes can creep into its duplicating DNA. As one generation inherits gene networks from its parents, the networks can slowly change.
But bacteria can also do something else we virtually never do: they can swap genes. The genes may be carried by viruses that jump from one bacterial host to another; in other cases, bacteria slurp up DNA from dead microbes and insert it into their own genomes. In still other cases, genes can spontaneously slice themselves out of one genome and get inserted in the DNA of a distantly related species. The most famous example of this process is antibiotic resistance. One reason that resistant bacteria can spread so quickly in a hospital is that inheritance is not the only way these microbes can get hold of the genes that can fight off a drug. Every now and then, the genes get transferred from one species to another; the lucky bugs that receive them soon outcompete their cousins who lack the defense. Horizontal gene transfer, as it's known, may involve a single gene or an entire network of genes. And when two networks arrive in an alien genome, they can combine together into a bigger network that can do something entirely new. Horizontal gene transfer gives bacteria an extra dimension of creativity.
Our penchant for pollution has given bacteria a new opportunity to flaunt this extra creativity. Over billions of years, they evolved the ability to eat just about any source of carbon on the planet. But in the past century we have created synthetic chemicals that bacteria have never faced before (or faced in only tiny amounts). In many cases, these chemicals kill off most of the bacteria that encounter them. Over the years, though, strains have emerged that can not only survive exposure to these pollutants but can even devour them. Scientists have unpacked the genomes of these hardy microbes to figure out how they evolved a solution so quickly. It turns out that microbes are swapping genes and gene networks, and then assembling them into networks that can handle the chemical at hand. Last year, for example, scientists looked at the bacteria that thrive in ground water near a Texas Air Force base polluted with fuel. One strain of bacteria there can break down chlorobenzene with a series of enzymes. This chlorobenzene-destroying network actually is the product of two smaller networks that can each be found in other bacteria strains in the same ground water. One turns chlorinated benzenes into another compound known as chlorocatechol. The other breaks chlorocatechol down into smaller molecules. Only in the strain studied by the scientists did these two networks come together to create an entirely new kind of metabolism.
These bacteria show an evolutionary nimbleness we will never enjoy. But it may be possible to harness them to clean up the messes we make.
(For more information, see this fascinating survey in the March issue of Nature Review Genetics.)
Wonderfully full and compact--I admire your writing! Your essay made me think of this poem of mine:
THE PLAN
New snow is floating down darkly on old:
Its shadows are deep. I think of viruses'
Dominion of man, how they raised him up
In their own conceit while he ran amok
Building his cities, their image conceived
As his own--the viral paradigm divine.
Three billennia ago it happened,
They devised the plan: "We'll let the apes grow
Fringey types, let ’Sapiens take dominion--
Let him live. As aphids to ants they’ll be
To us"--this was before the aphids arrived
Of course, and they were speaking Metaphor,
The language of viruses long ago,
In a fission they saw it, saw him rise
To Parnassus, test the bonds that bound him,
Discover his power’s use and license
Saw him, finally, discovering them--
The viral invasion, the ooze sublime.
There in deepening, darkest endurance,
In apocalyptic throes they triumphed,
Preoccupied: “As molds to gravity
They'll be like to us, gravely intent on
Purposes only the holy inspire!” --
They saw him in their lowly image shine.
Like old snow brightened by new, the viruses
Gleam in the shadows, and dream the divine
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: http://www.sciencedirect.com/science/journal/09680004
* (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: http://pubs3.acs.org/acs/journals/doilookup?in_doi=10.1021/bi011293r
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.
Corante: technology, business, media, law, and culture news from the blogosphere
OUR PUBLICATIONS:
Corante is a trusted, unbiased source on technology, business, law, science, and culture that’s authored by leading commentators and thinkers in their respective fields. Corante also produces premium conferences and publications that help decision-makers better understand their industries and the world around them.
Corante Blogs
Corante Blogs examine, through the eyes of leading observers, analysts, thinkers, and doers, critical themes and memes in technology, business, law, science, and culture.
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
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
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
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
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
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
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
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
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
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
Corante Developments
Here you will find the latest news from Corante including updates on upcoming events, new initiatives, product and publication launches, and more.
It was with shock that I returned home from a night out last night to hear the news of Russell's passing. How terribly, terribly sad. Most of all for him, as he'd seemed buoyant, healthier, and content when I'd last seen him several months ago when he was in town - he was happy that work was busy and rewarding and was having fun with it but most of all was thrilled about how things were going with his girlfriend, Ellen.
I've known Russ for what seems like ages now (in a good way) though in fact it's only been about six or seven years since the early days of "commercial" blogging when he started working on various projects at and around Corante. He was a diligent, committed, and prolific journalist who had impressively and more ably than others been able to make the transition from the old-school way of doing things to the new. He had his quirks, as we all do, but I greatly valued that he was good-natured, collegial, reliable, quick to adopt, trustworthy, eager to learn, and earnest in his interest in helping others better understand what he wrote about.
He was also, it should be said, a kind and thoughtful soul and it was the rare conversation in which he didn't ask, with sincerity, about what he knew of my life, e.g. our new babe, and we didn't talk as seemingly old friends about our lives and respective paths. I can't say I knew him very well, of course, but in our half-dozen get-togethers over the years and dozens of conversations I got a good sense of the man: he cared about learning and sharing and his bearing was earnest and ego-less and we'll miss him for that and more.
We wanted to let you know about a discount to New Comm Forum, the annual event event put on by our friends at the Society for New Communications Research. The conference, which runs from April 22-25, will feature many of the field's leading observers and is an important event for those looking, in the words of SNCR, to "better understand new communications tools, technologies and emerging modes of communication, and their effect on traditional media, professional communications, business, culture and society."
Check out the event's website and, if you're interested in attending, be sure to use the code supplied below for a special discount.
EARLY BIRD PRICING - NOW UNTIL FEB. 15th
NewComm Forum Conference - $995.
Pre-conference or post-conference session - $195.
SNCR Jam only - $75.
REGULAR PRICING - AFTER FEB. 15th
NewComm Forum Conference - $1095.
Pre-conference or post-conference session - $249.
SNCR Jam only - $75.
CORANTE READER DISCOUNTS
NewComm Forum Conference - save an additional $100
Use discount code: NCF08100
Pre-conference or post-conference session - save an additional $45.
Use discount code: NCF0845
We've been remiss in letting you know about two new independent blogs we've helped launch in the past month or so.
The first - the ConversationHub - is a companion blog to Supernova 2007, the latest edition of Kevin Werbach's excellent conference on all things connected. As the conference site says: "Supernova examines the effects of an increasingly connected world on business, life, and public policy. As disparate physical and social networks link with one another, a new societal network is rapidly evolving... The New Network is greater than the sum of its parts. It challenges us to re-create everything from the software and hardware we use...to the business models we employ...to the information and entertainment we encounter...to the ways we work and play."
Visit the ConversationHub and you'll find several dozen leading thinkers and doers, led by a few notable ringleaders, weighing in on the themes and trends of the day in technology and business. We encourage you to tune in - feel free to comment and even suggest topics and ideas for posts.
The second blog - Mobile Messaging 2.0 - convenes about a dozen top observers of the mobile messaging space for an intense discussion of the industry and where it's headed. Among its contributors are leading commentators, journalists and players in the field - tune in and you'll find them touching on topics such as mobile device design, messaging platforms, market pressures, user-generated content, interface design, and much, much more.
Also, if you visit the site, which is sponsored by Airwide Solutions, this week, you'll find live coverage and commentary from Global Messaging 2007, to which several of our contributors have traveled to hear about the latest developments from a broad spectrum of the industry's players and providers.
Be sure to catch the Office 2.0 Conference and hear from and engage with leading thinkers and doers in this exciting new market. Find out more here and be sure to use the code "GLDRK" for a special discount for Corante readers.
1. mary freeman on March 7, 2004 12:39 AM writes...
Wonderfully full and compact--I admire your writing! Your essay made me think of this poem of mine:
THE PLAN
New snow is floating down darkly on old:
Its shadows are deep. I think of viruses'
Dominion of man, how they raised him up
In their own conceit while he ran amok
Building his cities, their image conceived
As his own--the viral paradigm divine.
Three billennia ago it happened,
They devised the plan: "We'll let the apes grow
Fringey types, let ’Sapiens take dominion--
Let him live. As aphids to ants they’ll be
To us"--this was before the aphids arrived
Of course, and they were speaking Metaphor,
The language of viruses long ago,
In a fission they saw it, saw him rise
Permalink to CommentTo Parnassus, test the bonds that bound him,
Discover his power’s use and license
Saw him, finally, discovering them--
The viral invasion, the ooze sublime.
There in deepening, darkest endurance,
In apocalyptic throes they triumphed,
Preoccupied: “As molds to gravity
They'll be like to us, gravely intent on
Purposes only the holy inspire!” --
They saw him in their lowly image shine.
Like old snow brightened by new, the viruses
Gleam in the shadows, and dream the divine
2. Nic Tamzek on March 12, 2004 02:12 AM writes...
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: http://www.sciencedirect.com/science/journal/09680004
* 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: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12107140&dopt=Abstract
* (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: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=9422605&dopt=Abstract
* (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: http://pubs3.acs.org/acs/journals/doilookup?in_doi=10.1021/bi011293r
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:
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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’.
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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.
Nick
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