Stanley Miller Adds Poison Gas to Origin-of-Life Simulation 10/31/2002
Stanley Miller,
whose decades-old spark-discharge apparatus is pictured in
almost every biology textbook, is back. As a graduate student
under Harold Urey in 1953, he became famous for obtaining a few amino acids
under what was assumed at the time to be prebiotic conditions: a
mixture of methane, ammonia, hydrogen, and water vapor, subjected to
a spark simulating lightning in a primitive atmosphere.
Since then, scientists have considered it unlikely that these gases
were present in significant concentrations, believing instead that
carbon dioxide from volcanos was the predominant gas in the early
atmosphere. Trouble is, a CO2 atmosphere does not
produce the biologically-interesting molecules needed for origin of
life theories. In the
Oct.
30 preprints of the Proceedings of the National Academy of
Sciences, Miller and colleagues from the Yokohama National
University mixed in some carbon monoxide (CO), the gas that kills people
in their garages when they leave the car engine on or try to barbecue
indoors. With a mixture of carbon monoxide, carbon dioxide,
nitrogen and water irradiated by protons, they obtained seven
biologically interesting molecules, including the nucleotides
adenine, guanine and uracil. This brings to fifteen the target
molecules obtained by bombarding this mixture with different kinds
of energy sources. The team states,
A CO-dominant atmosphere can give bioorganic compounds with
yields comparable to those obtained from a strongly reducing
atmosphere. They caution, however, conditions on earth
would have had to be near freezing to keep uracil stable and generate
more complex biomolecules. Where did the carbon monoxide come
from? CO-dominant atmospheres could have existed if
the production rate of CO from impacts of extraterrestrial
materials were high or if the upper mantle had been more reduced
than today. The paper ends by discussing
alternate scenarios for the origin of prebiotic molecules
hydrothermal vents, meteorites, and a CO2-dominated atmosphere
and finds serious problems with each.
Miller has spent his life trying
to imagine the impossible, the origin of life without design.
Actually, he is surprisingly open-minded and
frank about the
problems. His 1950-era spark-discharge apparatus is essentially
irrelevant to the origin of life since it posited an unrealistic
atmosphere, yielded only trace amounts of just a few molecules that
had to be protected from destruction, and failed to segregate left-
and right-handed products. Sadly, the diagram of his apparatus
has taken on a life of its own in our culture, becoming an
icon of evolution
that is almost ubiquitous in textbooks and TV documentaries.
Astrobiologists today do not consider the 1950s experiment as plausible,
but just a step in the right direction.
Will carbon monoxide poison save the icon? All the same problems
are still there. The results are mixtures of left and right,
they could not have been present in significant concentrations, they
are much simpler than other required molecules, the monomers would not
naturally join into polymers, and even if they did join, there is the
problem of the origin of information. Millers team had to assume
unique initial conditions (freezing temperature, reducing mantle and
meteorites) to
save the model from being ruled out of court. Its out of
court anyway, because salts in the
oceans would have dismantled the molecules quickly, if
ultraviolet radiation did not beat them to the punch.
The products from Millers new-and-improved apparatus are
so simple compared to a living cell, they are comparable to childs
alphabet blocks compared to an encyclopedia, yet almost every mention of
these types of experiment uses the misleading phrase they obtained
the building blocks of life. So what if they get
trace amounts of uracil? Its just going to sit there or
degrade. It couldnt care whether it might be the start
of something big. Belief in the origin of life without a Designer
is a false hope, a case of the blind are leading the blind from one ditch to
another. What is most fun about this paper is
the way Miller debunks the other scenarios. Whether stork
meteorites bearing the baby molecules, or hydrothermal vents cooking
primordial soup in the black smoker kitchen,
they dont work. Nothing works.
Miller Time is over; its time to get back to work with
eyes open to intelligent design.
Next headline on: Origin of Life.
NSF Begins Massive Project to
Map Darwins Tree of Life 10/30/2002
A long-term project to determine phylogenetic trees is being funded by
the National Science Foundation to be done by the Chicago Field Museum
and seven other institutions around the world, according to
EurekAlert.
The project may take 15-20 years. Three subdivisions the Field
Museum will be working on are: Early Bird, Spider, and Archosaur.
The first years funding for the Assembling the Tree of
Life (AToL) project amounts to $12 million.
If their phylogenies are anything like those reported here, they have
job security. There are almost infinite conflicting trees you can
draw from the data. There is no single tree, but rather an orchard
or lawn, as Jonathan Wells explains about this one of his ten
Icons of Evolution.
They always claim its for a good cause: Phylogenetic
information has proven useful in many ways, such as helping scientists
focus biological research; track the origin and spread of diseases;
develop new medicines and agrochemical products; conserve species;
control invasive species biologically; and restore ecosystems.
But each one of these areas has been doing fine without help from
Darwin. Judging from the track record of phylogenetic studies
so far, and the unapproachable task ahead, their theme song must be
The Impossible Dream. We
can think of better ways to spend your tax dollars, like fighting
cancer and Alzheimers Disease.
Next headline on: Darwinism and Evolutionary Theory.
Evolution of Bird Feathers Explained at Last? 10/30/2002
You would think the details of feather evolution have been worked out according
to a report on
EurekAlert;
that is, unless you read further down. USC Scientists Uncover
Secrets of Feather Formation announces the title about a paper
published in the Oct 30
Nature Advance Online
Publications.
What they did was alter the expression of three genes in a chicken to see
what happened. With one gene suppressed, barbs became small and
detached; with another gene suppressed, they joined and became larger.
With a third gene suppressed, the barbs had webby membranes between the
barbs. Cheng-Ming Chuong believes this can shed light on the evolution
of feathers, but only slightly:
These results suggest that the barbs form first and later fuse to form
a rachis, much like downy feathers are formed before flight feathers when
a chicken grows up. Under the general rule of ontogeny repeating phylogeny,
downy feather made only of barbs probably appeared before the evolution of
feathers with rachides and capable of flight. However, pinning down
the exact moment at which dinosaur scales become chicken feathers is
non-realistic. Just like Rome, feathers are not made in one
process. It took 50 million years for Nature to refine the process,
to transform a scale into a flight machine. There were many, many
intermediate stages. While Darwins theory has explained the
why of evolution, much of the how remains to be
learned. Evo-Devo research promises a new level of understanding.
Evo-devo (evolutionary development) is a blending of evolutionary theory
with embryology, a recent trend to relate natural selection to the
expression of genes and developmental signalling. Chuongs
disclaimer makes it clear that his experiment, while interesting, is only
a small step in explaining how reptile scales could evolve into the
highly-specialized, interconnected branching structures that help give
birds their aerobatic skills.
There are so many mistakes in this story, its hard to know where to
begin.
- False promises. What the title trumpets, the article fails
to provide.
- Obsolete ideas. Chuong repeats the worn-out phrase
ontogeny repeats phylogeny, the long-discredited Biogenetic
Law of Ernst Haeckel, the fraud.
- Just-so story. He has no basis for knowing that downy
feathers evolved before flight feathers; he just made it up. Both
downy and flight feathers are highly specialized, the former providing
insulation (try a down sleeping bag and see), and the latter allowing a
pelican to swoop down into the water and pull up a fish.
- Comparing evolution of feathers to the building of Rome.
Rome was built by intelligent design, not evolution.
- Nature as goddess. It took 50 million years for
Nature to refine the process the old
personification fallacy
again. A bumbling goddess she is to take so long. The God of
creation did it in a day.
- Long ages. There is no basis for believing it took
50 million years to evolve feathers. The first bird is all bird,
capable of strong flight.
- Feathered dinosaurs. The so-called feathered dinosaurs do
not have feathers, only fibrous appendages whose function is not known.
- Magic. to transform a scale into a flight
machine neat trick! Scales are very, very different
from feathers. They form from different parts of the skin and do
not have any of the incredibly fine details of feathers, including their
barbules and hooks that allow them to form firm yet lightweight, aerodynamic
surfaces.
- Hand-waving. There were many, many
intermediate stages but there is no evidence for them.
We thought science was about evidence.
- Teleology. If there were many, many intermediates, every one
of them would have to provide an advantage to the proto-bird.
Would you want to be covered with stubs of keratin
if you couldnt fly? Evolutionary theory does not permit any of
these intermediates to work ahead toward the goal of fully-formed feathers,
because that would be teleology, the spirit Darwin was trying to exorcise from
science.
- False prophet. Darwin explained the why
of evolution... No, he didnt. There is no why in
naturalistic philosophy.
- Ignorance. much of the how remains to
be learned. Here we are, 143 years after Darwins book,
and were still trying to figure out how this fact of
evolution works? If you dont have how, you dont have a
scientific theory.
- Vaporware. Evo-devo promises a new level of
understanding. Dont hold your breath.
The bottom line is that this paper explains nothing about the evolution
of feathers. Like every other paper on Darwinism that we report,
it just assumes evolution. This team learned a little about three
genes that mess up the formation of feathers on a chicken. With
apologies to Carls Jr fast-food stands, can you find the nuggets
(of evolutionary wisdom) on this chicken?
Next headline on: Birds.
Next headline on: Evolutionary Theory.
Fitness for Dummies: Is It Running in Circles? 10/29/2002
The Oct.
29 issue of Current Biology has a primer on Fitness
by John Brookfield, in question-and-answer form. First, since fitness
is such a key word in Darwinian evolution theory, he
defines the term:
Fitness in evolution - what is it? Not fitness in the sense of
health, but rather an ability to survive and reproduce, as when the
Darwinian theory of evolution was characterized as survival of
the fittest.
He hastens to explain that while straightforward, there are subtle
shades of meaning that differ between geneticists and ecologists.
Brookfield hastens to answer the tautology criticism:
What about the old chestnut if fitness is defined by survival,
and then we say the fittest survive, isnt this all circular?
Not really. Suppose we have a population where half the offspring
survive to adulthood. An individual with a new advantageous
mutation might have a 51% chance of surviving to adulthood.
Its genotypes relative fitness is 2% higher than that of the
other individuals. But the individual with this new unique
genotype will either survive or it will not: an individual cannot
have a survivorship of 51%. Fitness is an average, or an
expected, outcome.
He adds the point that fitness can decrease in a population by chance,
if, for example, a bad mutation spreads through a population through
a series of lucky chance events. One thing
for sure, he explains: if a populations fitness can go
down, it cannot be a circular argument to say it will usually go up.
Brookfield then addresses the relation of adaptation to fitness:
Is an organisms fitness the same as its adaptation to
its environment? Evolutionary biologists look for adaptations
in the phenotypes (morphologies and behaviors) of organisms.
In population genetic studies of fitness, relative fitnesses of
organisms genotypes can be compared empirically.
Isnt it the same with all studies of adaptation?
Not exactly. When studying a phenotype universally seen in a
population of organisms, what does it mean to describe the phenotype
as causing high fitness or as being an adaptation? High fitness
relative to what? In these cases, phenotypes typically have to
be compared with a range of imagined possible phenotypes, as in
optimization theory.
He dodges getting embroiled in the controversy over whether memes
(ideas that evolve) can have fitness, or whether that is a circular
argument.
Look carefully at these answers, and
read our Baloney Detector entries on
equivocation and
circular reasoning. We are
assuming that Brookfields answers are current and valid
representations of what Darwinians believe, being published in
Current Biology. We assume they would receive nods of agreement
from Eugenie Scott and Ken Miller. (If you are an evolutionist reading
this, and disagree with Brookfields assessment, feel free to
write us and clarify what fitness really
means.) Now consider whether he has successfully dispensed with the
old chestnut that fitness is a circular argument.
Notice how right off the bat,
he defines fitness in terms of survival. How do you know
this moose is fit? Because it survived. Why did it survive?
Because it is fit. We seem to be off on the wrong hoof.
Now read and re-read his explanation of why this is not circular,
and see if it is clearer than mud. The percentages are all a
smokescreen if fitness has already
been defined in terms of survival. How does the biologist
know that a mutation is advantageous unless it causes the bull moose
to have a 51% chance (2% higher than his moosemates) of surviving?
But then he says mutations can lower the fitness, and this proves the
argument is not circular. But lower fitness relative to what?
To survival! Yet if all the individuals in the population have the
same survival, they have equal fitness. Confused? This is
a good sign; it means you are not being swayed by this shell game.
Fitness is such a nebulous term, it can mean anything.
If youre picturing a bodybuilder in a fitness center when you
hear the word fitness, youve got it all wrong. Fitness can
be a beer belly, if that gets you the girl. Fitness can be
anything the biologist wants it to be, good, bad or ugly, and if all
the population is ugly but cute (like fat elephant seals on the beach),
then theyre fit. To top it off and show how meaningless the
word fitness is in evolutionary biology, look at what Brookfield says
about adaptation. How do you know its an adaptation if
the whole population has the trait, and has a survival ratio?
Adapted relative to what? High fitness relative to what?
How do the geneticists measure fitness in the genes if they dont
relate to survival, putting them back into the tautology hammerlock?
All he can think of are comparing the observed phenotype to some
imagined possible phenotypes. What are these?
Superman traits, like X-ray vision? Come on. If Brookfield
thinks he tossed away an old chestnut, the chestnut tree just dropped
more on his head.
Next headline on: Darwinism and Evolutionary Theory.
Next dumb story.
A Pretty Gene is Like a Melody 10/29/2002
Dave Deamer of UC Santa Cruz thinks DNA is like music, says
Astrobiology
Magazine. With DNAs four bases A, C, T, and G,
we would have four musical notes that fit nicely into the key of C....
Could there really be a musical message in our genes? he says.
His London colleague Ross King thinks the same for proteins:
proteins are beautiful and similar to music in structure--neither
completely repetitive nor completely random. Musical
analysis is helping astrobiologists find patterns in the otherwise
overwhelming complexity in DNA. The article explains,
But a larger statistical analysis--akin to musical analysis--is
only now beginning to reveal remarkable similarities, which in turn
suggest that a kind of concerted evolution, or even common ancestral
molecules, might have a role to play in how DNA evolved.
This made our dumb category
instead of amazing, because while its interesting that
DNA has similarities to good music, the comparison is superficial and
totally inconsistent with evolutionary presuppositions. Good
music does not happen by chance (unless you like to hear John Cage
playing 12 radios at random and calling that music). How on
earth these astrobiologists can find musical structure
in DNA and then think that will help them imagine how it evolved
without a Composer is beyond comprehension.
Next dumb story.
Conference: At Biola University in Los Angeles this past
weekend, leaders of the intelligent design movement met for a
RAPID conference (Research and Progress in Intelligent Design).
You can read William Dembskis keynote address on the
ISCID
website, and also at
Access
Research Network.
Next headline on: Intelligent Design.
WWII Plane Flies Again After Entombment in Glacier 10/28/2002
Saturday the 26th, thousands in Middlesboro, Kentucky came to watch
a very unusual air show, reports
KnoxNews.com.
Glacier Girl, a World War II P-38 Lightning fighter, had spent
55 years locked in ice after its crew crash landed on a Greenland
glacier. In the intervening years it
had sunk over 250 feet into the ice.
Creation
magazine tells the story of how a salvage crew succeeded in finding
the Lost Squadron in 1997, dumbfounded at how deep the aircraft
had sunk into solid ice in just a few decades time.
Knox News also has stories about the
restoration work on the plane, a
veteran
P-38 pilots recollections, and a
time line
from Glacier Girls crash landing to its restoration.
Evolutionary geologists claim that
glacial ice layers represent annual depositions, and that their
ice cores contain records covering many tens of thousands of years.
How can they explain these planes sinking 70 meters in solid ice in just
55 years? The Answers in Genesis story contains an Addendum, answering
the question of whether metal aircraft would naturally sink into
the ice, and explains how they would not; all that ice must have accumulated
above the aircraft in just 55 years (see footnote 11 especially).
The story of Glacier Girl seems to provide clear evidence that
uniformitarian presuppositions can be very wrong.
Next headline on: Dating Methods.
Next amazing story.
Cambrian Explosion Ignited by Hunters in the Mud 10/25/2002
David Bottjer of USC has a new theory on why all the major animal phyla
appear abruptly at the beginning of the Cambrian strata
(the Cambrian Explosion).
Once upon a time, the microbial mats were all peaceful and content,
when all of a sudden predatory trilobites and worms came along and started
eating everything. To escape, the prey had to evolve hard
shells and defense mechanisms. The story is explained on
EurekAlert.
Bottjer is going to present his story to the Geological Society of
America on Monday the 28th.
When did scientists get into the
art of tall tale telling? This one belongs around a campfire in
the Rockies. Worms and trilobites are already very complex
creatures, much more complex than microbial mats. Trilobites
have complex, elaborate, functioning eyes. Did some microbes
just sit around one day saying, You know, life would be so
much more fun if we had eyes and mouths and ate our brothers?
Wagh! Bridger, thats a good-un!
Next dumb story.
Fossil Record Is Complete: How Good Is the Good News? 10/25/2002
The fossil record is essentially complete.
Whether thats good news or not
may depend on what bones you were hoping would be found to fill in
the gaps. Paleontology data better than expected,
announces a story in
EurekAlert:
The quality and completeness of the fossil record and its credibility
as a source of information about the history of life have been debated
since before Charles Darwins time. Now, as part of the
Paleobiology Database project, a systematic examination is being conducted
with some good news so far.
Why? Because even though tough-shelled animals should fossilize
more easily, and you would expect to find more of them, a preliminary
look at the database shows that fragile fossils appear just as
frequently as durable fossils.
Thats good news. It means that this intuitively obvious
bias is not as severe as we expected, and the fossil record may be a
more reliable source of information than we believed
[Michael] Kowalewski [of Virginia Tech] says.
In this project, we are not trying to reconstruct
the evolutionary history of biodiversity or assess the magnitude of
mass extinctions, but to evaluate whether the fossil record can indeed
provide reliable data for such studies, he emphasizes.
The Paleontology Database project is the largest project to pull
together fossil data into a centrally-accessible repository.
About 100 faculty members and students are working on it.
Now theres a great attitude.
Lets get the facts straight before we try to tell evolutionary
stories about it. The good news, however, must be bad news for
the Darwinists.
Charles Darwin was aware of the major and systematic gaps in the fossil
record, but hoped they would be filled in by subsequent discoveries.
Since then, other evolutionists have hoped that the gaps were due to the
apparent inability of soft-bodied animals to
fossilize as easily as those with tough bones and shells; presumably,
this would create a systematic bias in the record toward hard bodies
(but look at this example of
fossilized jellyfish).
It looks like the fossil record is pretty much complete: gaps,
Cambrian
explosion and all. Get used to it.
Next headline on: Fossils.
Fix the Textbooks: Cyanobacteria Werent the First 10/25/2002
Get ready to rewrite those biology textbooks - again,
begins the article on
EurekAlert
based on a story from the Geological Society of America, entitled
Evolution upset: Oxygen-making microbes came last, not first.
A researcher named Carrine Blank from Washington University found that
cyanobacteria are too highly evolved to have been the first critters.
But If Blank is correct, her revised evolutionary history of the
bacteria raises a difficult question: If cyanobacteria came later, where
did the Earths earliest oxidants come from which produced banded iron
formations?
Its nice on those rare occasions when
reporters do our work for us. Trouble is, nothing will convince these
evolutionists that the whole story is gasping for fresh air.
Astrobiology
Magazine has a popular-level feature on this subject.
Next headline on: Origin of Life.
Plants Borrowed Membrane Channels 10/25/2002
All living cells have specialized membrane channels that allow certain
molecules in and keep others out; for water, they are called
aquaporins (AQPs);
for glycerol, they are called aquaglyceroporins (GLPs).
There are also
ion channels for chloride or potassium.
The set of channel families are called membrane intrinsic proteins (MIPs).
An international team of researchers has compared the channel proteins
from plants, bacteria, and animals, and deduced that plants got
their glycerol channels by horizontal gene transfer, with subsequent
modification by functional recruitment:
The molecular phylogeny of MIPs supports that glycerol transporting in
plants was acquired by horizontal gene transfer and functional
recruitment of bacterial AQPs. It is likely that these events
were triggered by the absence of a GLP homolog in the common ancestor
of plants. We find that plant NIPs and GLPs share convergent or
parallel amino replacements needed to transport glycerol and therefore
represent a remarkable example of adaptive evolution at the molecular
level.
Their paper is published in the Oct. 23 preprints of the
Proceedings
of the National Academy of Sciences.
The paper is pretty confident about it, but the story is mostly
bluff.
The relationship does not jump out of the data; it has to be teased
out from preconceived notions. And, they had to
invoke the hand-waving acts of horizontal gene transfer, convergent and
parallel evolution to get the story to work. Their phylogenetic
tree-building, as usual, was replete with tweak artistry:
As expected, positional identity was difficult to establish for
most sites, and a total of 284 positions were excluded from the analyses
because of ambiguity... etc. etc. You can pick any story
you want out of these exercises. Clearly, however, the common ancestor
of glycerol channels was not evident in plants, so they had to sneak it
in sideways with horizontal gene transfer.
Their results are inferred from circumstantial, statistical, fuzzy, disparate pieces of
data. It only holds together with the glue of faith in Darwin.
Consider this example (emphasis added):
However, from an
evolutionary perspective and according to
the phylogenetic tree, NIPs are members of the AQP clade.
Because the horizontal gene transfer involved an AQP, plant
NIPs must have acquired the capacity for glycerol transport
at a later time by recruitment or exaptation (acquiring a function
different from the one for which the protein was selected
originally; ref. 33). The recruitment of an AQP as glycerol
transporter requires convergent or parallel replacements at
specific amino acid positions.
Re-read that as a disbeliever
in evolutionary common ancestry, and does it make any scientific sense?
Does it sound like a striking example of adaptive evolution at
the molecular level? If a story only holds together if you
already believe in evolution, it cannot be used as evidence for
evolution, because it is guilty of circular
reasoning.
Next headline on: Plants.
Next headline on: Genes and DNA.
Next headline on: Darwinism and Evolutionary Theory.
Human-Ape Differences Grow Wider 10/25/2002
Elisabeth Pennisi writes in the
Oct. 25
issue of Science about two California teams that independently
showed that humans and chimpanzees are genetically further apart than
previously believed:
For almost 30 years, researchers have
asserted that the DNA of humans and chimps is at least 98.5% identical.
Now research reported here last week at the American Society for Human
Genetics meeting suggests that the two primate genomes might not be
quite as similar after all. A closer look has uncovered nips and
tucks in homologous sections of DNA that werent noticed in previous
studies.
The results are quite exciting, says Michael Conneally, a human geneticist
at Indiana University Medical Center in Indianapolis. With this
research, we can really find out so much more about evolution,
he predicts.
See also our Sept. 23 headline on
this subject. Pennisi says that neither team would commit to a new value
for the difference, but both agree that the previously accepted
98.5% mark is too high.
It will be interesting to see what facts
come to light when the chimpanzee genome is sequenced and laid side by
side with the human genome. There are two lessons learned here.
One is Thumbs Second Postulate, that
an easily-understood, workable falsehood is more useful than a highly
complex, incomprehensible truth. Useful to whom? A
propagandist. We have heard evolutionists for years using this
98.5% figure as proof that humans are almost identical to apes, the
implication being we are closely evolved cousins. How do we undo
30 years of useful damage? The second is that evolutionists
will spin any fact to their advantage. Are humans 98.% similar to
chimpanzees? Well, this proves we are evolved from apes.
Are humans 5%, 10%, or 20% different than chimpanzees? (exact figure to be
determined). Wonderful; now we can really find out so much more
about evolution.
Next headline on: Mammals.
Next headline on: Early Man.
Next headline on: Genes and DNA.
Are Humans the Target of Evolution? 10/24/2002
Christian de Duve thinks so. He tries to make the case that
conscious beings like humans are the inevitable result of evolution
in his book Life Evolving: Molecules, Mind and Meaning, which
is reviewed by Eors Szathmary in the
Oct.
24 issue of Nature.
Szathmary gives him enough attention to get his point, but finds it
unconvincing. He thinks de Duve does not prove his case against
contingency (i.e., that evolution is a random process that did not
have humans in mind).
This is all so unnecessary.
De Duve and other compromisers are operating on the false assumption
that Darwinian evolution (common ancestry from molecules to man) is
a demonstrated fact. He needs to read Creation-Evolution
Headlines and see how every point of the story is filled with
anomalies, storytelling and logical fallacies. Raised Catholic,
de Duve is doing his best to rescue some tiny vestige of Christian
values from the wreckage left by the Darwinian juggernaut, but the
juggers are naught impressed. Whimpering appeasers trying to
wear two uniforms anger both sides. The Darwinists may heap more
hostility on a Duane Gish or Phillip Johnson, but they respect them
more for standing up for what they believe in and drawing the battle
lines clearly, rather than pretending that the Darwinian conquerors
have any tidbits to share with johnny-come-lately converts.
(See also next book review below.)
Next headline on: Darwinism and Evolutionary Theory.
Ernst Mayr Seeks the Last Word on Darwin 10/24/2002
Ernst Mayr, Harvard zoologist and todays leading
authority on evolutionary theory, has high praise for Janet Brownes
newly released volume 2 of Charles Darwin: The Power of
Place, which he reviews in the
Oct. 24
issue of Nature (see also our headline on
Edward Larsons review
last month). Mayrs opening paragraph underscores his own
evaluation of Darwins pre-eminent role in modern philosophy:
Apart from the Bible, no book has had a greater impact on the thinking
of Western Man than Darwins Origin of Species. This
claim is based not merely on Darwin having demonstrated evolution and
founded secular science, but also on the fundamental new concepts that
he introduced. Darwins refutation of Aristotles
fourth cause, teleology, was, according to the philosopher Willard
Quine, Darwins greatest contribution to philosophy. Darwin
firmly introduced history (the time factor) into
science. In biology, he replaced typological by population
thinking and gave chance scientific legitimacy, to mention some of his
other contributions. Most major planks in the
Weltanschauung of a modern thinker can be traced back to
Darwin. His role is finally understood, after more than a century
of misconceptions and misinterpretations.
So is Brownes biography the last word?
Mayr praises her level of detail and
historical accuracy (she studied 14,000 letters and 2,254 contemporary
reviews of his work), but thinks a definitive treatment of Darwins
evolutionary paradigm is still needed:
When evaluating this book we must remember that Browne is a historian
and biographer, not an evolutionist. This is why she does not
feel that it is her job to analyse Darwins evolutionary paradigm
(his five major theories) or to explain the principle of divergence and
how it misled Darwin, or why he ultimately failed to solve the problem
of the multiplication of species, which had been his major objective
when starting to work on his species book, or to try to explain
numerous other evolutionary problems that he encountered but left
without explanation. For answers to these questions one will have
to turn to other books.
Alas, there still is no satisfactory presentation and analysis of
Darwins whole evolutionary paradigm. My One Long
Argument (1997) has a short treatment of these problems but, by
necessity, does not refer to some of the most recent controversies and
findings. To supplement Brownes superb treatment of Darwin,
the man and his period, we now need a deep analysis of his work.
But this requires a real understanding of evolution, and such an
understanding is not very common.
Mayr points out that of Darwins close friends and
promoters, one was a Christian: In the
United States, [Asa] Gray was tireless in spreading the gospel of
evolution and, although he remained a Christian, he accepted
Darwins paradigm more completely than either Lyell or Huxley,
who never accepted natural selection or gradual evolution.
Here we have a remarkable thing.
We have a revolutionary world view introduced that changes everything
in Western civilization, but based on what? Where is the
actual evidence to support such a massive shift in philosophy
and our view of ourselves and the world? Mayr claims that
Darwin demonstrated evolution but all he demonstrated was
artificial selection, and then extrapolated that into nature.
The rest was all conjecture, not demonstration.
His contribution was the invention of the just-so story,
like how an eye might have evolved gradually from a light-sensitive
spot. He had a few Neanderthal skulls, but those turned out to be
fully human.
He had some fossils, but was well aware of the major gaps in the fossil
record, including the Cambrian explosion, which has only gotten worse
with time. He had finch beaks,
but that is just minor variation between interfertile species.
Nowhere is there a clear-cut case of natural selection having produced
a new species, and Mayr makes that clear: why he ultimately
failed to solve the problem of the multiplication of species, which
had been his major objective.... Mayr also admits that
he fell into the trap of Lamarckism and promoted a view of heredity
that subsequently was discredited. Darwin did some worthwhile
experimentation on plants, but in terms of evidence to support the
new Weltanschauung (world view), Darwin was a failure.
And what he didnt know is more profound than what he did
know; Darwin knew nothing of the true basis of heredity or development,
DNA, molecular machines, and the mind-boggling complexity of the cell.
Notice how all the other gold medals Mayr drapes
around Darwins neck are not for scientific achievements, but for
philosophical shifts aimed at removing God and design from scientific
thought: (1) founding secular science, (2) refutation of teleology,
(3) the time factor (i.e., long ages and progression from simple to
complex, as opposed to abrupt appearance of complex characteristics
as would have occurred at creation), (4) replacement of typological thinking
(seeing patterns and archetypes in nature) by population thinking,
(5) giving chance scientific legitimacy.
In other words, Darwin pulled off a philosophical coup without evidence,
while giving the appearance of explaining
the evidence with made-up stories. And now Mayr tells us that
143 years after the publication of the Origin, after world
wars fought on the principle of survival of the fittest, after racist eugenics
and cutthroat capitalism and the Scopes Trial and
Red October and Auschwitz and the Gulag and the Cambodian killing fields
and Tiannenmen Square, that we still lack a deep analysis of
his work and that a real understanding of evolution ...
is not very common. How many more such incidents will occur before
we get the last word on Darwin?
Perhaps the most egregious part of the saga
is Mayrs reminder that evolutions biggest marketer was
not Darwins Bulldog Thomas Huxley, nor Haeckel nor Lyell nor
Hooker, but a nominal Christian Asa Gray, who abandoned
the gospel of Jesus Christ and instead became tireless in
spreading the gospel of evolution. Did Asa Gray realize
he was spreading a false gospel, promoting secular science, refuting
teleology, giving chance scientific legitimacy, and contributing to
the marginalization of the faith he claimed to embrace?
Did he realize this was a philosophical coup, not a scientific
advance? Did he know his Bible? Did he ever
read
Galatians?
Next headline on: Darwinism and Evolutionary Theory.
Dogs Dig Bach, Seals Never Forget 10/23/2002
Two mammal stories just for fun today: dogs seem to like classical
music (more Bach, less bark), whereas heavy metal makes them go berserk,
says New
Scientist. And a
seal named
Rio remembered a trick she hadnt performed for ten years.
Job
said, Ask now the beasts, and they will teach you.
We may have to change the proverb from an elephant never forgets
and give seals the honor. Parents might be able to use the dog story
as clout in discussions about their teenagers listening habits, or
suggest it as a science project
(plants
can be substituted for dogs with similar results).
Next headline on: Mammals.
Ancient Cell Wiser than Most Computer Users 10/23/2002
The agony of delete strikes many computer users who neglect to
back up their data, but an ancient one-celled organism apparently has the
wisdom to keep backup copies of its genome. Thats the
implication of a story in the
BBC News
about Tetrahymena, a primitive protozoan that has a
macronucleus with the working genome and a micronucleus with a
master backup copy. Martin Gorovsky of the University of Rochester
has studied this ancient lifeforms strategy to protect its DNA:
Gorovskys team believes that in evolutionarily ancient times,
cells had to fight against a variety of assaults just as they must
today: viruses attacked cells, injecting their DNA to disrupt normal
cell functions; and transposons, bits of nomadic genetic material that
insert themselves into the cells DNA causing havoc.
To survive, cells evolved a correction system that recognized the invading
DNA and either eliminated or silenced it.
The team found that Tetrahymena inspects its DNA against the
master copy before passing it on, to ensure the progeny get an uncorrupted
copy. Gorovsky suspects a similar defense
mechanism is at work in higher organisms.
Unless the DNA library can be transmitted
with high fidelity, the genome of any organism would break down in just
a few generations. Creationists see in this a marvelous example of
design, but evolutionists are guilty of violating their own principles
when speaking in personal terms
as seen above. Its a technical foul for an evolutionist to
say a cell had to fight, or viruses attacked, or injected
their DNA to disrupt, or cells evolved a correction
system. Each of
these phrases puts personal intent into brainless one-celled organisms,
portraying them as more savvy than human beings.
In all fairness, we recognize the colorful language of journalism.
But try translating the story into the dry, impersonal
language of materialism and the theory of evolution breaks down.
Tetrahymena couldnt care less whether its genome gets
passed on accurately or not. When you remove all sense of value
judgments (e.g., its good to survive), and all sense
of purposeful intent (e.g., the organism evolved this
defense mechanism to protect its DNA), why should anything survive or
evolve? Who cares? Certainly not the cell or the virus!
Notice also the xenophobia: the virus is the bad guy, and the cell is
the good guy. On what basis do they make this value judgment?
Whatever is, is right. If the virus wreaks havoc (whatever that
means the word implies values again) then havoc just is.
Creationists do not have this problem, because they
believe the Creator purposely intended for organisms to survive, and
built these mechanisms into them for that purpose. Biblical
creationists even propose that viruses might originally have had
a beneficial role that went wrong at the Fall. Evolutionists, by
contrast, commit their own mortal sin of invoking teleology when speaking
in personal terms as in this story. We must challenge this and call
it what it is: inconsistency. Make them stage their drama without
actors but only props, and you will have a really boring performance,
where nothing happens onstage but decay, and the props dont care
whether you boo or applaud.
Next headline on: The Cell.
Next headline on: Genes and DNA.
Next headline on: Darwinism.
Fruit Flies and Butterflies: Ho-Hum, More Microevolution 10/22/2002
Two papers in the online preprints of the Proceedings of the
National Academy of Sciences October 22 talk a lot about
evolution, but the variations studied occur only within species,
so only constitute cases of microevolution or horizontal variation.
In both, the technique employed was artificial selection, the implication
being that natural selection acts similarly.
Two Swiss scientists
taught fruit flies a thing or two in a paper entitled, Experimental
evolution of learning ability in fruit flies. They purified
51 generations of fruit flies that had learned to associate quinine with
a particular oviposition substrate. They noticed a marked improvement
in conditioned response after 15 generations, and deduced that
these behavioral changes are caused by the evolution of both a higher
learning rate and a better memory.
In a paper entitled,
Modularity,
individuality, and evo-devo in butterfly wings three Netherlands
scientists checked whether butterfly-wing eyespots must evolve together
(coupling) or can evolve separately. By artificial selection they
were able to get them to evolve separately, thus loosening a constraint
on natural selection that some biologists had proposed: the idea that
modules of genes must evolve together. For a brief
summary, see the
Netherlands
Organization for Scientific Research press release.
These papers are filled with the word
evolution, but are just talking about conditioned response and
artificial selection. The fruit flies are still fruit flies, and
the butterflies are still butterflies. Much of evolutionary
literature is like this: taking small changes within species,
turning observed horizontal variation on end into vertical trends,
and extrapolating the data
recklessly from hydrogen to Homo sapiens sapiens.
This is how the impression is given that all scientists believe evolution,
and that evolution has been demonstrated in the laboratory.
Give em an inch and they take a mile. How do they know
the limit is not two inches before it breaks? Artificial selection
can only take a species so far. Pumpkins can grow big enough to
fill a wheelbarrow, but not the Rose Bowl. Just as there are
natural limits to artificial selection, there are natural limits to
natural selection.
Evolutionary research papers usually end on the note that
we have a lot more to learn, and these two are no exception.
The fruit fly paper ends: ...our approach offers an opportunity
to study the genetic bases of quantitative variation for learning
ability segregating in natural populations. It also opens
new avenues of research on the ecological consequences and fitness
costs of learning. The butterfly paper ends,
The general problem of how serially homologous structures acquire
individuality through evolutionary time is a fascinating topic for
evo-devo research. Keep the funding coming, and we may
figure out this Darwinism thing someday on a wing and a prayer.
Next headline on: Bugs.
Next headline on: Darwinism and Evolutionary Theory.
Bone Crypt of James, Brother of Jesus, Found? 10/21/2002
A brief article in
National Geographic News
makes the startling claim that a box once bearing the bones of James,
brother of Jesus, has been found. A 2000-year old ossuary
bears the inscription, James, son of Joseph,
brother of Jesus. The article states that this is the
first archaeological evidence pointing to Jesus as a real person:
Until now, all references to the three men have been
found only in manuscripts, An expert dates the ossuary at
around 63 A.D.
MSNBC News
has more detail on the potentially earth-shattering find,
cautioning that the three names were commonplace at that time and the
reference being to Jesus of Nazareth cannot be proved. The owner
bought it from an Arab antiquities dealer in Jerusalem who claims it
was unearthed south of the Mount of Olives 15 years ago.
The significance of its inscription
was not known by its owner until Andre Lemaire, a French specialist in
ancient inscriptions, examined it last spring. He is publishing
the discovery in the November
Biblical
Archaeology Review which is characterizing the find as very
probably authentic.
New
Scientist also gives the story favorable press.
Lemaire is confident that the artifact fits within the time of
James
death by Herod. Beyond that, its difficult to be certain,
but certainly plausible, that the references are to the New Testament
characters James, Joseph, and Jesus of Nazareth.
Very intriguing, but
whether it proves genuine may never be known. Is this really the
first mention of Jesus in artifacts? Dont manuscripts
also count as archaeological evidence? We have thousands of manuscripts
of the New Testament. While this discovery is important, our
confidence in the genuineness of the life of Christ comes not from relics,
but from words words from credible
eyewitnesses
who walked and talked with Jesus and touched him, and
recorded
through inspiration of the Holy Spirit
the very Word
of God. That should be more than sufficient evidence.
Anecdote: the same day,
National
Geographic News claimed voodoo is a legitimate religion.
Maybe thats because its an evolving one: A
spirit religion, voodoo likely evolved from ancient traditions
of ancestor worship and animism. No manuscripts or archaeological
evidence here; only just-so stories and intimidation from authority.
Kind of like Darwinism.
Next headline on: The Bible.
Molecules and Antelope Play Games to Survive? 10/17/2002
In a News and Views section of the
Oct 17 Nature, Michor and Nowak
examine the current views on game theory as an evolutionary explanation
for altruism. From von Neumann to Szabo and Hauert, from
prisoners dilemma to the Red Queen, they discuss various proposals
to overcome Darwins caveat that natural selection cannot directly
promote altruistic acts where individuals reduce their own competitive
ability but increase that of others. So why would an antelope,
or a molecule, or a human lay down his life for his friends?
Answering that in Darwinian terms is still a work in progress.
In particular, this article examines the latest extension of game theory
to the problem of loners, those who dont play the game; i.e., they
get their own pay-off without paying into the company pool :
Those who choose to participate in the public-goods game must forgo the
loners pay-off. Equivalently, one could regard the pay-off
as the avoidance of a fixed cost for participating in the public-goods
game.
In this game, defectors dominate cooperators, as they do in a game without
loners; but loners dominate defectors, because in a world of defectors,
the public-goods game yields nothing, and loners avoid the cost of
participating. Cooperators, on the other hand, dominate loners,
because the public-goods game pays in the absence of defectors.
The circle is closed.
To what kinds of living systems does this theory apply?
At the dawn of life on Earth (or elsewhere), replicating molecules had
to cooperate to take the first step towards increasing complexity and
stability of molecular and later cellular ecosystems.
Multicellularity requires cooperation among cells. Cooperation is
common in animal societies, but it is often confined to interactions
among related individuals. Large-scale cooperation among
unrelated individuals seems to be a particularly human trait. Of
course, cooperation is always threatened by defection; oscillations
between war and peace have been a recurring theme in the
cooperation literature. The new work shows that it is optional,
rather than compulsory, interactions that promote cooperation.
The authors describe various computer simulations where models of
these games can be played.
If any reader can explain why this is not
a blatant case of the personification
fallacy, please write us.
If the evolutionists do not really mean that antelope and molecules and cells
are consciously choosing to play along or not in various games, why do
they speak in these terms without explaining what they really mean?
Otherwise, they should stop playing games and go do some real empirical
scientific work.
Next headline on: Darwinism and Evolutionary Theory.
Next headline on: Intelligent Design.
Ohio School Board Votes Unanimously to Teach the Controversy 10/17/2002
Yesterday by a vote of 17-0, the Ohio State Board of Education voted
in favor of an intent to adopt new science standards which include the
following two changes: (1) changing the wording of the definition of
science from Recognize that scientific knowledge is limited to
natural explanations for natural phenomena based on evidence from our
senses or technological extensions to Recognize that science
is a systematic method of continuing investigation, based on observation,
hypothesis testing, measurement, experimentation, and theory building,
which leads to more adequate explanations of natural phenomena.
(2) Adding this statement to 10th grade life science: Describe
how scientists continue to investigate and critically analyze aspects
of evolutionary theory. The group that has been advocating
the teach the controversy approach,
Science Excellence for
All Ohioans, is pleased with these modest changes, but feels that the
language in the evolutionary theory sections is still problematic
in numerous places. The vote just indicated intent to adopt the
standards; after additional hearings, the final vote is slated for December.
More news sources: Cleveland
Plain Dealer, Columbus
Dispatch, Associated
Press. See also
Answers
in Genesis on the spin doctoring going on in the media. Mark
Hartwigs
Weekly Wedge
Update for Oct. 23 discusses the decision and has links to additional
resources. Dr. Paul Nelson commented that Darwinists dont seem
to know quite how to spin this story. On the one hand, they were
calling it disastrous to science, but after the decision they were
saying its not a big deal.
Spin doctoring is for politicians,
not scientists. Its hard to see how anybody could
oppose these changes. They are in line with Congressional guidelines
and U.S. Supreme Court decisions. They only state what teachers
are already allowed to do. They do not bring religion into the science
classroom. They do not decrease the teaching of evolution, nor
mandate any teaching of creation. Why the fuss, then?
They open the door for
controversial aspects of evolution to be presented honestly, for students
to hear that there are alternatives, and they
remove the naturalistic philosophy built into the definition of science.
This puts the ACLU, the NCSE, and the NAS on the warpath.
Science
Now, for instance, continues to lie about and
distort the story, invoking the science vs. creationism stereotype.
(Notice how their report contains artwork of one of Jonathan Wells
icons of evolution: the
monkey-to-man sequence.)
Science should be a search for truth about nature, with the freedom to
follow the evidence wherever it leads. Evolutionary theory should
not be propped up with outdated, distorted, or fallacious arguments.
And when the primary spokesmen for Darwinian evolution admit
there are serious problems and controversies in Darwinism
(as we regularly document here in Creation-Evolution Headlines),
why shouldnt students know this?
The majority of citizens whose tax money pays for public schools favor
the teach the controversy approach. It is reasonable,
fair, and desirable for students to be allowed to hear all the evidence
and weigh it, thereby developing skill in critical thinking.
The opposite is indoctrination. David Berlinski (mathematician,
Princeton), who is neither Christian nor creationist, has words for those who
think evolution should be protected from criticism:
The idea that the high school has to be a kind of
large locker room where only the coachs pep talk is considered
reasonable that should be repugnant. Thats not really how
we want our educational establishment to be run, is it? Lets give
high school students the benefit of the doubt.
Science Now was earlier adamantly opposed to any change, but now is
downplaying the impact; they brag about evolution now being explicitly
taught, while claiming that the board threw a small bone to the
other side by adding the vague assertion that teachers
should teach the controversy.
They end by boasting about a poll of scientists,
contrary to the Darwin Partys usual tack of arguing that
polls dont matter in science. Its important to
remember that scientists can be very knowledgeable about their narrow
specialty, yet abysmally ignorant of and dogmatic about issues outside
their field. A JPL scientist once told this editor that from his
experience in academia, scientists tended to be the most closed-minded
and authoritarian people he knew. You could discuss their specialty
with reason and logic, but outside of that, they trusted whatever the
authorities said; in evolution, the word of a Stephen Jay Gould or
Richard Dawkins was gospel; if you differed, they would not listen.
It does not follow that a scientist
in the ivory towers of a university is an expert in all areas of science,
especially something as broad as evolution. This poll of 500 scientists
claims they are not aware of any evidence for intelligent design or that
challenges evolutionary principles. This result is akin to liberal
journalists claiming they dont know anyone who is a Republican.
They mix among their peers so much of the time, they have a distorted view
of the outside world, as if all America is like Hahvahd.
Jonathan Wells recalls a Bill Cosby TV interview in which he
is asked by a white man, How come there are not
more well-educated, middle-class blacks? Youre the
only one I know. Cosby replied, You really should
get out more.
Next headline on: Schools.
Announcing: The Protein Big Bang Theory 10/16/2002
A paper in the Oct 16 online preprints of the
Proceedings
of the National Academy of Sciences has an intriguing title:
Expanding protein universe and its origin from the
biological Big Bang. Three biochemists from Harvard,
University of North Carolina School of Medicine and Boston University
attempted to demonstrate a possible origin of all proteins from a
single or a few precursor folds a scenario akin to that of the
origin of the universe from the Big Bang. A striking
characteristic of biological proteins is that many have similar folds
even with unlike sequences of amino acids; these are called
orphans because they are nonhomologous: i.e., they appear
to have no common ancestors. To explain this,
previous investigators imagined that there might be some kind of
designability principle that made evolving proteins converge on these
special folds. This team set out to show that biological proteins
could have diverged instead from simple random precursors; in other
words, divergent evolution rather than convergent evolution
produced the protein domain. To do this,
they graphed all known protein folds on what they call a protein
domain universe graph (PDUG), tweaked in such a way as to make
it scale-free. (An example of a scale-free network is the
world-wide web.) After differentiating it from random networks,
they deduced that it could have grown by divergent evolution, as
proteins evolved through recombination, duplication and mutation, such
that folds were preserved even as the sequences were shuffled:
It is quite suggestive that the origin of the observed scale-free
character of the PDUG lies in the evolutionary dynamics of protein
fold genesis as a result of divergent evolution from one or a few
precursor domains. To this end, we develop a minimalistic model
that aims to explain the scale-free PDUG. Specifically, we
assume, as do several other models, that new proteins evolve as a
result of an increase in the gene population primarily by means of
duplication with subsequent divergence of sequences by mutations,
as well as more dramatic changes such as deletions of certain parts
sequences and even possible reshuffling of some structural elements
(foldons).
Their analysis yielded a striking number of orphans, as expected,
giving them confidence in their analysis. They caution, however,
that the picture is oversimplified:
The divergent evolution model presented here is a schematic one, as
it does not consider many structural and functional details, and
its assumptions about the geometry of protein domain space in
which structural diffusion of proteins occurs may be simplistic.
However, its success in explaining qualitative and quantitative
features of PDUG supports the view that all proteins might have
evolved from a few precursors.
They conclude by also cautioning that their graphical analysis was
just an algorithm selected to spy on nature, not that
nature used any algorithm to create the protein domain. They
chose the algorithm and set the threshold values to attempt to
discern natural processes from random ones.
This is the old fallacy of arranging
the tools in your garage in hierarchical order and claiming this
demonstrates they had a common ancestor.
Despite the math and the graphs, their concepts are vague and
superficial. They admit that the number of possible sequences
of amino acids is huge compared to those that have function:
the underlying assumption of equilibrium in sequence space
[i.e., assumed by those who suspect a hypothetical designability
principle, that proteins somehow converge on specially favorable
folds] is difficult to justify if one considers the sheer size of
sequence space. In other words, it is an observational
fact that proteins are not random sequences, but are functional
machines with specific shapes that work. In mathematical
terms structure space << sequence space.
These authors speak nothing of how structure evolved; they only
speak in glittering generalities
about scale-free networks and possible divergence from precursors.
They pull information out of the magic hat
by invoking duplication and reshuffling. Dumbest of all is their
silly analogy with
the Big Bang theory. Proteins have nothing to do with
exploding hydrogen. If we wanted to have fun with their comparison,
we could point out that, like cosmological Big Bang theory, the protein
Big Bang also has a
lumpiness problem,
an entropy problem, an
ignition problem, and an origin problem.
Enough joking around; time for a reality check.
Proteins are highly complex, specified molecular machines.
Their speed and accuracy of function in catalyzing reactions and
arranging themselves into assembly lines with
quality control and
feedback is astounding.
Like Dean Kenyon exclaims awe-struck in the film
Unlocking the Mystery of Life,
after the computer-animated sequence of DNA and proteins in action,
This is absolutely mind-boggling to perceive at this scale
of size such a finely-tuned apparatus that bears the hallmark of
intelligent design and manufacture. All attempts to
explain this observational fact by convergent or divergent
evolution are just bluffing and
wishful thinking, plausible
only to those who have sold their minds in advance to naturalistic
philosophy.
Next headline on: The Cell and Biochemistry.
Next headline on: Genes and DNA.
Next dumb story.
Cell Beats Computer: 100 Trillion Times Faster at Folding a Simple Protein 10/15/2002
Researchers at
Los Alamos National Lab
modeled the folding of a simple protein of 18,000 atoms
on their computers, reports
EurekAlert.
It took 6 months on 82 parallel processors,
which amounts to 34 years of CPU time. The cell folds this
particular protein in about 10 microseconds (millionths of a second),
which is 100 trillion times as fast. Thats proportional
to one second vs. 3.4 million years.
The computer algorithm the scientists designed relies on
exhaustive sampling of protein configurations and utilizes massively
parallel computing combined with molecular dynamics and a random-sampling
Monte Carlo simulation of the thermodynamics. It is expected
that the processing time would grow exponentially with the increasing
length of the protein chain, but cells routinely fold their proteins
within milliseconds to microseconds.
University
of Florida reports a record holder: a short 20 amino acid protein
that folds within 4 microseconds. Biophysicist Stephen Hagen asks,
What is it thats special about these molecules that enables
them to solve a very difficult computational problem spontaneously
in such a short amount of time?
Update 10/21/2002:
Nature
Science Update reports that a scientific team predicted a protein
fold successfully by using spare time on 200,000 home PCs in a distributed
project called Folding@home. This amounted to about to 2,000 years
of computer time. The article states, Trying to anticipate
how the many atoms within a protein interact as it crumples up is a
mind-bending problem involving near a billion steps.
Like entering a maze, the molecular backbone can start looping up in a
numerous different ways, yet most paths lead to dead ends.
Somehow the real protein avoids the pitfalls and finds shortcuts through
the maze, achieving its correct shape in five milliseconds.
There are a huge number of
wrong folds
a particular chain of amino acids can make, but only one or a few
that will work. How the cell does this
so accurately and so
rapidly is one of the most intriguing branches of biology right now.
Scientists know that
misfolded
proteins are implicated in many diseases;
usually the cell destroys them. Only an elaborate system of
quality control keeps these dynamic chains
in their correct shapes.
A typical cell has over 100,000 proteins at work at any one time,
all correctly folded, that are continually being
programmed in the nucleus via DNA,
assembled in the ribosomes,
folded by chaperones,
and then dismantled and
recycled in the proteasomes.
The computer model in the story is an important step in mastering the
protein-folding Olympic event,
but it primarily underscores the excellence of
the software the Creator built into the cell.
Next headline on: The Cell.
Next amazing story.
Mummified Dinosaur Found in Montana 10/15/2002
According to
National Geographic News,
a mummified dinosaur carcass has been found in Montana,
so complete that even its skin, muscles, and the last meal
in its stomach have been preserved. Almost a complete specimen of
brachylophosaurus, it is said to be the fourth dinosaur ever
found in a mummified condition; the other three were found in the
early 1900s. Local museum curator Nate Murphy
told National Geographic, To find one with so much external
detail available, its like going from a horse and buggy to a
steam combustion engine. It will advance our science a
quantum leap. Soft tissues are only found in 1/10
of 1% of dinosaur fossils. This fossil was first discovered
in summer 2000, but announced just last weekend at the annual
meeting of the Society of Vertebrate Paleontology in Oklahoma.
It has been dubbed Leonardo because of nearby graffiti signed by a
man named Leonard in 1917.
The remarkably preserved soft tissues
covering 90% of the fossil include
muscle, nail material, a beak, and skin that, when the animal was alive,
was almost as soft as your earlobe. The stomach contents were
so well preserved, they could detect Leonardos last meal:
a salad of ferns, conifers, and magnolias, seasoned with pollen from
40 different plants. This information could provide a significant
reality check on the movies.
Murphy continued,
Paleontology is not an exact science. All we have are
bones, and from there we develop theories about what the animals
looked like, how they moved, and what they
ate. A specimen like Leonardo will take a lot of guess work
out and really tell us if Steven Spielbergs getting it right.
Update 10/21/2002:
Science
Now came out with a report on this extremely rare find that is wowing
paleontologists. The article includes a picture of the duck-billed
hadrosaur fossil in its skin.
How could these delicate features be
preserved unharmed for 65 million years? Just one million
years is a long, long, long, long time for continents to shift,
mountains to rise and fall, and catastrophes to scar the earth.
Should not this fossil be taken to challenge current theories about
the age of dinosaurs? Carl Wieland reported in
Creation magazine
that many dinosaur fossils still contain the original bone material.
Imagine the paradigm shift if evidence becomes overpowering that dinosaurs
lived in the relatively recent past. Doesnt this fossil cry out
for a re-evaluation of the assumptions? Now all we need is a good
living dinosaur to be found. Dont laugh; recently
pine trees from the age of dinosaurs
were found in Australia, alive and well, and many other
living fossils extend back farther than
that in the assumed evolutionary time scale.
Next headline on: Dinosaurs.
Next headline on: Fossils.
Next headline on: Dating Methods.
Next amazing story.
SETI@Home Faces Funding Crisis 10/15/2002
According to Silicon.Com,
SETI@home is running out of money. The project to search radio
signals with the help of four million volunteer home PCs may have to call it
quits unless a new sponsor comes to the aid. All development on
SETI@home II, which was to add southern hemisphere data from an Australian
radio telescope, has ceased. The
SETI@home
website does not appear to be trumpeting the bad news.
When you are investigating the unknown,
you do not know what you will find, but money is always hard to find,
especially for investigating the unknown.
Next headline on: Search for Extra-Terrestrial Intelligence.
The Evolution of Folly, or Vice Versa? 10/14/2002
The entire
Oct 10
issue of Neuron is devoted to Reward and Decision.
In their analysis,
Jonathan Cohen
and Kenneth Blum discuss how the diverse areas of neurology,
psychology, economics and evolutionary biology are all
attempting to converge on models that explain the empirical facts
regarding choice.
But while neurology and psychology are swimming in data but lacking models,
the other
fields have models but are weak empirical data. Some models appear to
predict behavior, but there is no consensus on why animals and people
often make suboptimal choices (emphasis added):
This special issue of Neuron addresses two of the most basic and
interesting questions about the neural bases of human behavior: how
reward is processed in the brain, and how this influences our
behavior. Indeed, perhaps the most general observations that can
be made about our behavior (or that of just about any organism) are
that (1) its primary and ultimate goal is to seek reward (and avoid
punishment), and (2) we are not always so good at doing this. As
elementary and self-evident as are these observations, a closer
consideration of each raises profound questions about the nature of
human behavior and how it is guided by reward. First, how do we
evaluate and compare the diverse forms of reward-satisfying a
biological need, pursuing a form of leisure, living longer, or helping
another-that are available to us? From an evolutionary perspective,
these might all be viewed as mere stepping stones to the ultimate
reward: ensuring the future of our genetic lineage. However, from
another perspective, that of the individual going about her daily life,
the more proximal forms of reward are of paramount importance.
They must be assessed and compared to one anotherin implicit
calculations if not within the full view of consciousnessso that she
can decide, in a timely manner, what to do next. How are these
calculations carried out, across vastly different domains of
information, in the face of a staggering array of behavioral
possibilities, so frequently, and so quickly? The second
observation is equally perplexing. Why are we so often bad at
doing this? Despite millions of years of evolution and its
culmination in the truly glorious (though at times equally nefarious) capabilities
of the human brain, isnt it remarkable that the behavior of even
reasonably intelligent individuals can be as idiosyncratic, seemingly
irrational, and sometimes patently counterproductive as it often
appears to be?
They offer some possible explanations: One is that the job is
tough and evolution is not perfect. Another is that
evolution molded our behavior for an environment different than that
which we live today. A third, it is also possible that
evolution did the best with the cards it was dealt, but that the
hand itself was not perfect.
Here we see the
personification fallacy
again, clear as day. This is a frequent sin in evolutionary
literature. Here also we see high praise for the design in
nature, the truly glorious capabilities of the human
brain, with just the assumption that it evolved (see
begging the question). There
is also an impermissible word used (nefarious), a foul because evolutionists
do not believe in moral evil. Worst of all is the blatant
reductionism that sees all
human activity, no matter how sublime, as nothing more than desire
to gain reward and avoid punishment. How do you, gentle reader,
feel about the ultimate reward described above not heaven, seeing
your Creator face to face and hearing him say, Well done, thou
good and faithful servant, and sharing joyful relationships with
righteous beings forever but passing on your genes?
Is that what makes you work so hard, and do all you do? So what if
another generation of evolutionary pawns gets to proclaim the mantra,
Vanity
of vanities, all is vanity. Whoop de do.
In the concluding review essay by
Paul Glimcher
of New York University, Decisions, Decisions, Decisions: Choosing
a Biological Science of Choice, the relationship between ultimate
and proximal causes is explored. He examines economic models
like game theory and tries to relate them to the actual nerve impulses
measured by neurologists when a rat pushes a lever. He discusses
how groups of individuals, like ducks, can form Nash equilibria even
when individual behavior is stochastic. Considering the progress
that the diverse fields of economics and evolutionary biology and
neurology are making, he concludes that, Using the evolutionary
and economic framework of behavioral ecology, it is beginning to appear
that the ultimate causes of behavior can be examined and in much the
same way that Horace Barlow used information theory to describe efficient
sensory encoding (emphasis added. Barlow had described the brains filtering
of constant sensory data as an optimization technique in terms of
information theory.)
There is a lot of material in this issue, much
more than can be quoted to adequately convey the thinking of the authors,
but one aspect is notable: there is no doubt in their minds whatsoever that
human behavior must be understood in solely evolutionary terms.
Ethics, religion, revelation, love, responsibility
all these are out. They have no need of these hypotheses.
They might have a case if they were successful, but where is the
success? They can point to nerve impulses on a sheet of graph
paper here, and monkeys that know which button to press there, and
some economic models that give rough predictions of group behavior
over yonder. The rest is mostly questions and a maze of variables
too vast to even approach. Evolutionary behaviorism
is a perpetual research program with no ultimate answers.
Worse, it shoots itself
in the foot.
If evolutionary biology can explain all behavior in terms of selection for
rewards and against punishment, and these are the result of uncaused,
unplanned, unguided, purposeless forces of selection, how do they know
their own answers are true? Maybe they are the result of a selfish
game to get the reward of more grant money, or avoid the punishment of
getting fired under the publish or perish rule.
And why are they so baffled by the stupid choices people make?
People used to speak of sin and responsibility and wisdom and discernment,
but now those are impermissible in the toolbox of causes.
Now, a gambler is a just a helpless pawn of selective pressures that
acted on his apelike ancestors. The adulterer is
actually doing a good thing by carrying on the affair; like
what
was claimed about birds in a recent study, cheating might be an
evolutionary strategy to minimize the effects of inbreeding.
Good and evil have been replaced by selective pressures.
Scientists like this would go to church not to hear the message, but to
analyze the forces of natural selection that produced that organism
up there on the platform who is imploring
sinners to repent, or calling for volunteers to go to the mission field
and help those living in superstitious darkness. OK, lets
turn that reasoning around. So what
selective pressures led them to become scientists? If their own
explanations are mere manifestations of game theory or selection,
how can they claim they are more valid than the preachers?
If they retort that science has a track record of finding truth about
nature, where is the track record here? It is all profound
mysteries, a vast complexity of variables, oversimplified models,
conflicting theories, disconnected disciplines, and empty promises.
Its vaporware masquerading
as empirical science, with no delivery date requirement. Its
reductionist nonsense, nefarious because it absolves people
of responsibility for their actions.
One of the last ideas
Stephen Jay Gould had before he
died was a compromise plan for science and religion called
non-overlapping
magisteria. Basically, he said to
religious people, well give you the arts and humanities if you will
leave the natural world to the scientists. This is a lot
like Joe saying to Mike, You can have the toys, but I
get to keep the weapons. What happens? Pretty soon,
Joe is holding a gun to Mikes head and saying, Hand over
the toys. Materialistic science will never be content
with just rat mazes and encephalograms. They want to arrogate unto
themselves the title of High Priests of Knowledge. They want to seize
every field of inquiry into their eternal research project, and
convince everyone that all other players are disqualified, especially
preachers of the
Word of God. Lets
see how they feel about ethics and morals when their spouse cheats
or blows the life savings at Las Vegas, or a vandal sprays the
house with profane graffiti. No righteous indignation allowed.
Next headline on: Darwinism and Evolutionary
Theory. Next dumb story.
Edinburgh to Honor Dropout: Charles Darwin 10/14/2002
The BBC News
reports that the city of Edinburgh is going to erect a plaque at the
rear entrance to the Royal Museum, and hold a half-day event
celebrating the famed originator of the modern theory of evolution.
Darwin attended Edinburgh University for a short time at age 16, but dropped
out. He later attended Cambridge, where he studied for the clergy of the
Church of England, and received his only degree in theology.
The article refers to him as one of the most important scientific
thinkers of the 19th century, and concludes, There was strong
resistance to Darwinian thinking but nowadays the theory of evolution
is at the centre of mainstream science.
A more fitting memorial would be a plaque
mentioning the
unmarked graves of 100 million people who perished under totalitarian
regimes built on the principle of survival of the fittest. Yes,
Darwin did not personally advocate or foment these regimes, and would
probably have opposed them. But it is a fact that Hitler, Stalin,
Marx, Ingels, Lenin, and Chairman Mao all saw Darwinian evolution as the
basis in natural science for their views. Marx said this explicitly.
Stalin, while a
seminary student for the Russian Orthodox Church, read the Origin of
Species and became an atheist. Darwins work laid the
foundation of a philosophy of atheism and materialism which persists
to this day in the scientific bureaucracies that idolize him while
jettisoning the scientific philosophies
Kepler and
Pasteur based on design.
Darwin did nothing to stop those even in his day that
took his ball and ran with it.
He himself, as a recent biographer
portrays, was knee-deep in Victorian sexism, racism, and classism that
progressed through his later years.
The originator of idea may not be totally responsible for those that abuse it,
but ideas have consequences.
The City of Edinburgh would do well to honor
another of its famous sons that had much more to do with the practical
scientific advances of our modern world:
James Clerk Maxwell.
Next headline on: Darwinism and Evolutionary Theory.
Discouragement and Hope Confront Solar System Theorists 10/11/2002
Researchers were foundering in a sea of meteorite data, begins
the article by Richard Kerr in the
Oct. 11
issue of Science, but new findings offer a renewed prospect
of understanding how the solar system came to be.
John Wood was discouraged. For more than 40 years he had been
studying meteorites, in hopes that the first rocks formed in the solar
system would reveal when and how they and other planetary bodies came
to be. Now a leading figure in his field, Wood was beginning to
suspect that the evidence might not be there. And in a plenary
lecture at the annual Lunar and Planetary Science Conference, he
stunned his colleagues by saying so.
After 200 years of studying meteorites, we still dont
understand what they are trying to tell us, Wood lamented
(Science,
31 August 2001, p. 1581). I personally
wonder whether we ever will.
That was two years ago. Since then, however, in a recent flurry
of papers, Wood and others are finding some cause for hope.
The problem has been that meteorites contain calcium-aluminum inclusions
(CAIs) that contain burned-out remnants of short-lived isotopes like
beryllium-10 and beryllium-7, along with chondrules that (according to
current models) must have formed millions of years later:
Theres a big puzzle how you can possibly store
CAIs for millions of years waiting for chondrules to form, says
[Frank] Shu [Taiwanese astrophysicist]. Marble-sized bits of
rock orbiting in the gas of the solar nebula would have been dragged
into the sun within tens of thousands of years, he notes, not
millions.
So what is the hope? First, as we reported
August 29, a team of astrophysicists
concluded that the earth formed much more rapidly as previously
believed, in 30 million years, down from earlier estimates of
100 million. This new date revision, it is believed, can help
constrain models of planetary accretion.
The new date has its drawbacks, [Alexander] Halliday [of Zurich, Switzerland]
notes. For one thing, the work also reduces the date of the
moons formation from 60 million years after the solar nebula
formed to 30 million years. The later origin had neatly matched
the age of the moons oldest rocks, which were presumed to have
quickly frozen out of the ocean of magma covering the new moon.
The revised age of the moon creates a 30-million-year gap, forcing
scientists to explain either why moon rocks took so long to form or
where the first ones went. Thats a bit of a
surprise, says Halliday, one to be sorted out with more chemical
and isotopic analyses.
On other fronts, efforts are being made to explain chondrules.
The discovery of beryllium-7 in CAIs (half-life 53.28 days), is
fantastically exciting, says Donald Burnett of Caltech,
but also upsets the apple cart. This discovery and
other features of chondrules are almost requiring blasts of radiation
from the sun that could have melted and molded the materials together.
This has resurrected versions of Frank Shus 1996 X-wind
model of nebular processing:
In his scenario, the young sun blasted the nearest nebular material
with heat and radiation and then blew the resulting blobs of molten
rock up and out over the nebular disk in the magnetically driven wind
typical of newborn stars. Falling back onto the disk, the
droplets became chondrules, which formed the building blocks of both
chondrites and terrestrial planets.
Yet chondrules appear to have required heating for up to 2100 K for
several minutes and cooling for hours to create their characteristic
minerals. The X-wind picture is incomplete, think most other
theorists, so another mechanism has come into vogue recently.
Two independent teams have proposed that shocked and heated gas
in the solar nebula could have kept the chondrules hot for a few hours
before they radiated away all the heat. Shock is now the leading
proposed mechanism for chondrule formation. Now theorists are
gearing up to explain where the shock waves came from, which is still
an open question.
Wood has reason to still be discouraged.
The news can hardly seem that hopeful, because each solution is
breeding new problems. If the earth accreted in short order,
then it puts the formation of the moon (already an unlikely happenstance)
into a much narrower window of time. Added to this are new ad hoc
mechanisms (X-winds and shock waves) that require finding a cause.
If you are a regular reader, you know that these are not the only
difficulties with the nebular/planetesimal hypothesis for the origin
of the solar system. See the recent headlines about
Uranus and Neptune,
Ios volcanoes,
the nanodiamond deficit, and
comets, along with many other such
stories in our Solar System chain links. These are all in addition to
the biggest puzzle: our finely-crafted planet earth itself, with its
radiation shields,
water oceans, and
numerous other anthropic features
that make it perfectly suited for life.
Naturalistic theorists think they have done their job
if they can finagle some story, any story, that is
remotely plausible after a few beers, like speculating on how Paleys
watch in the woods came together by an earthquake, a landslide,
a tidal wave and a meteor impact in a carefully-timed sequence.
Materialistic scientists are like prisoners locked in a dungeon of their
own making, cheering one another up with false hopes that they might
be able to bore a hole through the walls with their fingernails.
It would never occur to them in 30 million
years to just reach over and
use
the key.
Next headline on: Solar System.
Next headline on: Dating Methods.
New Biography of Alfred Russell Wallace Reviewed 10/10/2002
Professional skeptic Michael Shermer
has released a new biography
of Darwins rival and co-discoverer
of natural selection, entitled
In
Darwins Shadow: The Life and
Science of Alfred Russell Wallace. James Mallett of University
College London reviews it in the
Oct
10 issue of Nature and finds it mostly good, but the
kind of story one can spin various ways. Most disconcerting to
Wallace historians was that this scientist
could delve into spiritualism, and worse, disbelieve that natural
selection could explain all the wonders of life, believing instead that
an overriding intelligence was watching over human evolution.
This apparently gave Darwin sneezing fits: You write like a metamorphosed
(in retrograde direction) naturalist. And you, the author of the
best paper that ever appeared in the Anthropological Review!
Eheu! Eheu! Eheu! - Your miserable friend, C. Darwin.
Wallace was no Christian, certainly,
and is a paradoxical figure for sure, but the Darwinian materialists
cannot tolerate any suggestion that natural selection is anything less
than the creator of all living wonders. That is why Darwin is the
historical champion of evolutionary theory, not Wallace, who almost
beat Charlie to the punch. Pseudoscience is their
label for anything beyond material causes, including God, used to
explain any biological phenomenon. From molecular motors to
hummingbird wings, from exploding seed pods to human gymnasts, natural
selection is the catch-all, do-all wonder worker. It is the
biggest materialist panacea in history. And what is the evidence
for this alleged mechanism and engine that
drives molecules to evolve into men, and
monkeys into
Presbyterians?
Finch beaks,
peppered moths and other
trivial variations. (Mallett exaggerates, Darwins viewpoints
on these topics are completely vindicated: for example, the idea that
peacock tails evolved by female choice is strongly supported by
experiment he needs to read our Sept.
9 headline on this). Natural selection
is a vacuous concept that cannot
explain a hill of beans.
(Beans require thousands of molecular motors
and a huge coded DNA library of complex specified information, and they
depend on tiny molecular machine in
bacteria to get their nitrogen.)
Too much ink is wasted on whether Darwin or Wallace
should get more credit for
this bloated idea.
Too little credit is given to
Edward Blyth,
the creationist who thought it up earlier, 24 years before Darwins
Origin.
Blyth
saw natural selection not as a creative force, but a conservative
mechanism the all-wise Creator built into living things for their
survival in changing environments. That can be supported
by observations; evolving whales from amoebas is another (just-so) story.
Next headline on: Darwinism and Evolutionary Theory.
Toumaï Skull Fires Controversy 10/09/2002
Its just a gorilla skull. No! Its a human
ancestor youre just jealous!
So goes the tussle over Toumaï, the skull announced
by Michel Brunet in July, says
Nature
Science Update. Critics argue that its just a
female gorilla skull in bad shape, but defenders retort that
their criticism is a thinly disguised attack on someone
elses fossils and a thinly disguised advert for their own.
Milford Wolpoffs critical analysis guised in technical jargon is in the
Oct
10 issue of Nature, where also
Brunet prints his rebuttal.
Maybe the upcoming reconstruction will help, sighs the news report.
National Geographic is not taking sides.
This is more fun than watching
cavemen beat each other over the head with clubs.
Next headline on: Early Man.
SETI Discovers Aliens! (In the Movies) 10/09/2002
Unsuccessful so far at finding life in space, SETI researchers
have pointed their instruments at Hollywood, and hit pay dirt.
Nature
Science Update reports that they are calibrating their new
Rio Scale, which is supposed to help weed out hoaxes from true
signals from extra-terrestrial intelligences. The movies
Contact and Independence Day scored 10 on a scale
of 10.
False alarm. Call back when
they get out of the theater and back to their consoles.
You cant blame them for getting bored, though, just sitting
there year after year.
Next headline on: SETI.
Next headline on: Movies.
Next dumb story.
From Gills to Lungs, Wings and Looms 10/08/2002
What can you get from gills? In the latest issue of
Current
Biology, some German and Greek scientists think you can get lots
of things: insect wings, lungs, and spider web spinning equipment.
They investigated the expression of two genes between horseshoe crabs and
spiders and concluded that Combined with morphological and
palaeontological evidence, these observations suggest that fundamentally
different new organs (wings, air-breathing organs, and spinnerets) evolved
from the same ancestral structure (gills) in parallel instances of
terrestrialization. Although they admit that
Understanding morphological changes that occurred in the distant
past poses a major challenge for evolutionary biology, and that
similarities in expression patterns can sometimes be misleading
for determining homologies, they feel their molecular comparison
matches other lines of evidence: Looking for congruence among
independent types of data (morphological, palaeontological, or molecular)
and phylogeny is the only way to overcome this problem and trace the
origin of morphological innovations such as wings, book lungs, and
spinnerets after hundreds of million years of evolution. Our
observations are congruent with data from comparative anatomy,
palaeontology, and phylogeny, and this gives us confidence in arguing
for the common origin of these structures.
Science
Now has a summary of the idea.
Did you catch the circular reasoning here?
Nowhere do these authors supply any evidence for how a gill could
turn into a complex spinning device that can generate one of the most
ideal materials known to science, spider silk,
or how any of these other complex structures wings and lungs
could arise from a long progression of mistakes (mutations).
All they do is look for similarities in what they think are
independent lines of evidence, which in fact are related by a common
assumption: evolution.
Theres a joke about a man named Joe who got drunk Monday night
on gin and soda, drunk again Tuesday on ale and soda, and drunk
Wednesday on vodka and soda. The obvious conclusion is that soda
caused Joes drunkenness. These evolutionists see soda in
the fossil record, comparative anatomy (homologous organs) and molecular
phylogeny, but missed the point: every one of their lines of evidence
is contaminated with the alcohol of Darwinism. From the starting
base, they have already assumed that these organisms (trilobites,
horseshoe crabs, spiders and insects) all have a common ancestor,
then they use that assumption of common ancestry to demonstrate
common ancestry. Comparative anatomy is built on the assumption
of evolution (homologous organs arose from a common ancestor, and then
are used to demonstrate common ancestry). Molecular phylogeny is
built on the assumption of evolution (conserved genes have a common
ancestor, so if you find conserved genes they demonstrate common
ancestry). The fossil record might be able to demonstrate
actual descent from a common ancestor, if there were plentiful
transitional forms, but all these authors point to are horseshoe
crabs living fossils, unevolved for
supposedly 500 million years! Thus every one of the so-called
independent lines of evidence invoked by these authors already assume
Darwinian common descent to be true, so they are reasoning in a
circle. Theyre drunk on Darwinism while singing How
dry I am.
Next headline on: Bugs.
Next headline on: Genes and DNA.
Next headline on: Darwinism and Evolutionary Theory.
Natural Selection Just Got Tougher: Sex Doesnt Help 10/07/2002
Is sex a benefit for evolution? Scientists knew that selection could be limited by
linkage between genes, and some thought that sex would remove this hindrance. Now,
two Univ. of Rochester scientists publishing in the Oct. 7 preprints of the
Proceedings of the
National Academy of Sciences, in a study of fruit flies, concluded that sex
does not remove the obstacle of linked genes:
Population genetic theory shows that the efficacy of natural selection is
limited by linkageselection at one site interferes with selection at linked
sites. Such interference slows adaptation in asexual genomes and may explain
the evolutionary advantage of sex. Here, we test for two signatures of
constraint caused by linkage in a sexual genome, by using sequence data from
255 Drosophila melanogaster and Drosophila simulans loci.
We find that (i) the rate of protein adaptation is reduced in regions of low
recombination, and (ii) evolution at strongly selected amino acid sites
interferes with optimal codon usage at weakly selected, tightly linked
synonymous sites. Together these findings suggest that linkage limits the
rate and degree of adaptation even in recombining genomes.
The paper is entitled, Linkage limits the power of natural selection in
Drosophila, by Andrea J. Betancourt and Daven C. Presgraves.
Another serious blow for Darwinism.
The title says it limits selection in fruit flies,
but fruit flies have been Exhibit A of evolution since the 1930s. Hardly any
other species has been studied for evolutionary mechanisms in such detail.
We have lots of weird mutants: flies with wrinkled wings, flies without wings, flies
with duplicate wings, flies with red eyes or black eyes, flies with legs growing where
the antennae are supposed to be. None has ever arisen with a clear evolutionary
advantage. Now, the very power of natural selection has been called into question.
Are school teachers going to be able to quote P.N.A.S. in science classes, or is that
off limits now? (Darwinism must be presented as impregnable in school; biology
teacher Roger DeHart was dismissed from teaching biology for quoting Stephen Jay Gould
and scientific journals that were critical of the power of natural selection.)
Next headline on: Darwinism and Evolutionary Theory.
Does Science Lie? 10/07/2002
The Oct 4 issue of the journal
Science
contains a news item on the Cobb County, Georgia school board vote
that reportedly opens the door to creationism (it
does not; it simply allows teaching the controversy about evolution).
Author Constance Holden claims, The Supreme Court ruled in 1987
that creationism has no place in science classes; yet that ruling
only forbade state-mandated equal-time provisions. The Supreme
Court decision specifically said, Teaching a variety of scientific
theories about the origins of human-kind to school children might be
validly done with the clear secular intent of enhancing the
effectiveness of science instruction. According to
Wendell Bird, who
argued the case before the court on behalf of the state of Louisiana,
The majority opinion leaves open at least two alternatives to
indoctrination in evolution and censorship of scientific alternatives:
(1) the right of teachers to teach a variety of scientific
theories and to bring Scopes-type lawsuits if punished or prohibited,
and (2) the right of schools, school districts, and perhaps legislatures
to encourage or require teaching of all scientific theories . . .
about origins. As long as aspects of
creationism, intelligent design or problems with Darwinism are presented
scientifically and not religiously, therefore, they do not violate either
the spirit or the letter of the Supreme Court decision; it is only that
states cannot pass laws mandating equal time for creation and evolution.
If the Supreme Court had meant that creationism has no place in science
instruction, the No child left behind
Education Bill passed
by the Congress last December would have been declared unconstitutional.
For some balance on what happened in Georgia, read
Mark
Hartwigs commentary on the Cobb County decision.
Even the pro-evolution website
National Center for Science Education
states that the Supreme Court only struck down laws that
mandated balanced treatment of creation and evolution,
or prohibited evolution teaching it does not follow that
creation has no place in the science classroom (see
non-sequitur in the
Baloney Detector). Holdens claim is no more logical
than concluding, if the court had struck down a law mandating equal numbers
of Republicans and Democrats in the Senate, that therefore Republicans
are illegal. This highly-biased report in
Science has no place in a journal that is supposed
to be an open-ended search for truth. Science editors
are welcome to their opinion of the Supreme Court decision,
but they should not lie about what it said.
Next headline on: Schools.
Flower Signalling: Is it Come on In, or Get Lost? 10/04/2002
Flowers are speaking out of both sides of their mouth, says Kathryn
Brown in a News Focus item in the
Oct 4
issue of Science. Are they trying to sweet-talk bugs
into their interiors for pollination, or keep thieves out?
Traditional Darwinists have long assumed the former, but a new
generation of biologists is considering the possibility that mixed
motives may contribute to floral evolution:
Compromise, as Galen puts it, is fast becoming the new
buzzword as researchers uncover the details of floral evolution.
Many scientists have long explained flower fashions rather simply: From
richly red bee balm to the cornflowers spiky crown, popular
theory has gone, each flower has evolved the right color and shape to
attract effective pollinators. The yucca plant, for instance, turns its
flowers upward at dusk, to be pollinated exclusively by the yucca moth,
which rolls up its heavy pollen like a snowball.
But today, a growing number of scientists are looking for more subtle
evolutionary forcesfrom nectar thieves and herbivores to
environmental demands and developmental changesthat might also
sculpt floral traits. Were taking a more pluralistic
view, says evolutionary ecologist Sharon Strauss of the
University of California, Davis. And theyre raising some
eyebrows in the process.
But traditionalists arent prepared to surrender the
pollinators primacy, says Browne. Nevertheless, the
revisionists claim that we dont have enough data to support the
pollinator paradigm, and more forces must be involved in the natural
selection of floral displays.
Like design? Speaking of humble
lilies of the field, Jesus claimed that even Solomon in all his glory
was not arrayed like one of these
(Matt.
6:29). Darwinism,
however, finds no beauty in flowers.
It seeks to reduce everything to selfish utilitarianism: the
flower only wants to pass on its genes, so it will do any selfish trick
in the book to lure in the good bugs and make the bad bugs miserable.
So that, children, is how we got roses and petunias and orchids and
snapdragons and azaleas. This is the reductionist legacy of naturalistic
evolutionism: it robs nature of beauty.
But function and aesthetics are not mutually exclusive;
a bridge can be ornate, yet permit passage of traffic.
A Christian alternative viewpoint would not deny that
flowers are functional, that as reproductive organs they must attract
pollinators and repel intruders. Instead, it would say that in
the process of making an interconnected world of living things, the
Creator expressed beauty out of His goodness. Flowers have, what
Francis Schaeffer termed, useless beauty. But this is not a
scientific approach, an evolutionist will complain. Well, given
(1) that the fossil record makes the evolution of flowering plants an
abominable mystery
(in Darwins words, and still true today), and (2) that (as this
article reveals) evolutionists have no convincing case that
natural selection could produce roses and petunias and azaleas, we ask,
is naturalism a scientific approach? Abrupt appearance, beauty
these are the observations that Darwinism cannot explain.
Next headline on: Bugs.
Next headline on: Plants.
Next headline on: Darwinism.
Mystery Star Challenges Stellar Evolution 10/03/2002
Astronomy
Picture of the Day, a service of Goddard Space Flight Center,
has a picture October 3 of an unusual star named
V838 Monocerotis that
flared up in January of this year. The caption states:
the erupting star transformed itself over a period of months
from a small under-luminous star a little hotter than the Sun, to a
highly-luminous,
cool supergiant star undergoing rapid and complex
brightness changes. The transformation defies the conventional
understanding of stellar life cycles.
Update 03/27/2003:
The Hubble
Space Telescope Science Institute released a dazzling set of
four images of the light echo of this eruption progressing outward.
Any undergraduate astronomy student
knows that the stellar life cycle mapped on the color-luminosity
diagram is one of the best-understood processes in astrophysics,
or at least it is often presented that way. Where does this
star fit on the diagram? We are told that stars take millions
of years to evolve from one stage to another, but here is one that
went from a small sunlike star to a supergiant within months.
This one is called a totally new addition to the astronomical
zoo. But how different is it, really, from other main
sequence stars? Maybe stars can evolve quicker
than earlier believed. Stellar evolution is, of course, not
evolution in the sense of increasing in complexity or information.
It is the working out of physics and chemistry under gravity, better
termed stellar aging. We are not seeing creative
processes here, but destructive processes, as the stars matter
and energy is being flung outward into space.
Next headline on: Stars.
Quasar Not Linked to Nearby Galaxy 10/03/2002
The Hubble Space Telescope has just released a new image of
Markarian
205, considered Exhibit A in a long-standing debate about redshifts.
For many years, Halton
Arp and a minority of other astronomers have contended that the
quasar and the galaxy are connected by a bridge of material, and this
proves they must be physically associated, even though they have very
different redshifts. Thus, the redshift value cannot be taken
as a measure of distance. Markarian 205 was the showcase example,
though Arp had
many others
in his collection
of photographs. The
new
Hubble image appears to clearly show that there is no bridge at all,
and the two objects are unrelated. The Hubble team claims
it is just a chance alignment.
Update 10/10/2002: Govert Schilling in
Science
Now reports that the believers are not giving up. Arp is accusing
the Space Telescope Science Institute of deliberately misleading the public,
and one of his former students released an enhanced version of the image
with the bridge still present.
Whether the Hubble image settles the debate
remains to be seen, but there is no indication of a bridge in the
photograph. Nevertheless, readers should be aware that a good
deal of
image
processing goes into images that are released to the
public. Anyone who has worked with digital images knows how easily
they can be manipulated. It is now a matter of ethics and trust to
believe images posted on the Internet. Images released by reliable
sources should not be dismissed out of hand, of course; one should just
be aware and read the fine print. Whats more important than this
one disputed image is the statistical nature of the evidence.
Are there too many alignments of discordant-redshift
objects to be accounted for by chance? One weakness of the
minority view was that it lacked a coherent physical mechanism that could
produce redshifts apart from the expansion of the universe. Arps
suggestion that quasars were ejected from galactic nuclei seems
implausible to many. It will be interesting to see if he
makes a better case, but for now, this new photograph appears to strengthen
the case that redshifts are cosmological; i.e., that they are a function
of universal expansion and therefore indicators of distance.
Some creationists
had used the older photographs to question the redshift evidence for
the big bang theory. Redshifts, however, do not bear on the question of
whether the universe was created or not. The naturalistic big bang theory
still has its lumpiness problem
and other severe headaches, cosmological redshifts notwithstanding.
Next headline on: Cosmology.
The Peppered Myth Lives On, But Not on Tree Trunks 10/03/02
See the 10/02 update to our July 5 headline
about Judith Hoopers expose of the peppered moth myth and the furor it
is causing. Hear Jonathan Wells explain why some students,
misled by the fraud, want their tuition money back.
Your Immune System: How the Assassins Recognize the Terrorists 10/03/2002
Killer T cells, like roving assassins in a search and destroy mission,
look for viral terrorists and obliterate them in their hideouts.
But first they have to recognize who is friend or foe, and in
auto-immune diseases or tissue rejection, sometimes mistakes are made.
How the cell flags its contents, and how the T cell detects
it and responds, is a complex and mysterious process. Scientists
are nearing completion of understanding the general picture from start to
finish. One question that remained was how a system that is highly
conserved from mice to men could produce a unique scent at
the cell surface, so individual that your immune system can sense the
difference between you and foreign.
An important piece of the puzzle
has recently been identified and reported in the
Oct 3 Nature
by U.C. Berkeley biochemists. But to understand it, we have
to back up and create some word pictures, or else get bogged down
in abstruse jargon. Pardon us in advance for the silly
analogies and mixed metaphors; the reality is really quite amazing.
Killer T cells recognize body cells infected with a
virus because each cell has a sophisticated system of wearing its innards
on the outside. An individual cell can have about 10,000
flags on its surface, composed of pieces of every protein found in the
interior. These flags, like sausages always nine amino-acid links long,
are mounted on flagpoles, or rather meatpoles, called MHCs.
How do they get there? Well, as proteins inside outlive their
usefulness and are tagged for recycling,
a barrel-shaped meat cleaver called
a proteasome chops them into sausages up to 15 units long.
Sent back into the cell, most are quickly seized upon by roving dogs
(aminopeptidases), but some manage to make it into the subway (endoplasmic
reticulum) through special mechanical gates made just for them (TAP, for
transporters associated with antigen processing). There,
another cleaving machine starts dismantling them one link at a time.
Crowded nearby are MHCs looking for the unique
nine-unit pieces that fit them just right. When no match is found,
the chopper keeps cutting the links all the way down for recycling.
But if an MHC finds a nine-unit sausage that matches perfectly,
it mounts it and ferries it to another special porthole on the cell surface,
where it plants it to wave in the breeze. A killer T cell, roving
about with a nose that makes a bloodhound look like a man with a bad
cold, sniffs all these pieces of meat and is able to detect foreign
meat (viral protein scraps) that are not USDA approved so
to speak. If it finds one, the penalty is severe: the whole cell
is targeted for incineration. But its a small
price to pay for health of the body. This is a nonstop state of
war and the stakes are high. Any cell that harbors terrorists must
be destroyed. Besides, there are trillions more cells that can take
their place.
What these scientists found was the chopper (aminopeptidase)
in the subway that trims the sausages down. They named it ERAAP,
and found that it does not need to be concerned with fitting each
nine-link sausage to the appropriate meatpole (MHC); it just chops away, one
link at a time, and if an appropriate meatpole is nearby to grab it,
fine. If not, it chops it all the way down and the individual links
(amino acids) are made available for recycling into new proteins. In his
News and Views
perspective on this discovery, Hans-Georg Rammensee calls this
Survival of the Fitters the way ERAAP works
is a fine example of how nature uses the survival-of-the-fittest
principle, even inside the cell, to solve a complex task in an
economical way.
Thus he ruined a good story with a bad
punch line. Equivocation is
the fallacy of shifting definitions of terms in mid thought.
Survival of the fittest, as it is usually understood, has
no application to the complex, purposeful system pictured here.
Hes playing with words, making a pun, to make this seem relevant to
evolutionary theory. Darwinism is, by definition, a trial and
error, purposeless, directionless process, but here in the immune
system you have a long series of processes directed to a goal.
Like a Rube Goldberg machine, if any elements are missing or dont work,
the system breaks down. Its actually a wonderful recycling
and signalling system, as if spies constantly roam the recycling bin
for information that might be useful to the FBI outside.
Arent you glad that your security
forces on the outside have these allies on the inside that let them
know if alls well, or if a Trojan horse has breached the city
walls and invaders are within? The fact that the viruses
own proteins are subject to this same signalling system lets the
killer T cells know what is really going on inside, and take the
appropriate countermeasures when necessary.
Next headline on: The Cell.
Next amazing story.
Do Enzymes Evolve From Nonenzymes? 10/02/2002
A paper in the
Oct. 2 issue
of Structure compared enzymes with nonenzyme homologs to see
if either had evolved into the other. In Sequence and
Structural Differences between Enzyme and Nonenzyme Homologs,
three UK women biochemists have no doubts that evolution has shaped
enzymes into their repertoire of functions: Ancestral genes have
been duplicated, mutated, and combined through evolution to generate the
multitude of functions necessary for life. Yet deep in the
paper, it is clear that most of their findings show that most homologs
appear to have lost enzymatic function: The examples presented
suggest that the evolution of a nonenzyme from a catalytic precursor
is more common than the reverse scenario, that is, the design of a
catalytic function on an ancient nonenzyme domain. They
found 12 examples of enzymes losing catalytic function, and five of
nonenzymes gaining it; but In all five nonenzyme to enzyme
examples ... nature appears to have exploited the specific binding
properties of the catalytically inactive precursor.
This means that the trend is downward,
not evolutionarily upward, despite their optimism that The wealth
of biological data now available has revealed the prolific evolutionary
adaptation of old proteins for new functions. OK, show us.
Where is the evolution of new function? They talk about enzymes
that have lost their activity, but give no watertight cases of any new
functions being gained by nonenzymes. The only examples look like
regaining of previous function that was inactivated somehow, like
unchaining Prometheus.
The paper is full of the
word evolution but its really about degradation. It is
also filled with the assumption that proteins with similar folds are
homologous (meaning: derived from common ancestors), even when they
have low sequence similarity. Thus they are guilty of
circular reasoning. They believe
homology derives from common ancestry, then use the homology as evidence
for common ancestry. The trend of all things is toward disorder.
Were waiting for someone to show a plausible sequence of steps that
can buck the trend, and go from random sequence to working enzyme that
performs a new and useful function.
Take us from iron ore to a working vise, for instance, through a sequence
of small intermediate steps where each one has an advantage that can be
acted on by natural selection. (But dont get us started on
natural selection.) Oh, and by the way,
get your own ore.
Next headline on: The Cell.
Next headline on: Genes and DNA.
Flight to Mars: Its a Battlefield Out There 10/01/2002
Space@NASA has
feature about space medicine: what doctors and physiologists have to
take into account before sending astronauts to Mars. Long periods
of weightlessness, medical emergencies and disorientation can be tough
to deal with millions of miles from home. One of the
toughest is shielding the human body from damaging radiation that
can fly right through the spaceship and rip into tissues, causing
disease and death over long periods of exposure. Without
some kind of countermeasures to protect you, says
the story, your muscles will shrivel, your bones could weaken,
your genes might be damaged and confused. When you arrive, you
might find it hard to even get out of your spaceship without stumbling
and hurting yourself. The article discusses some of the
countermeasures that scientists are studying, but much work remains to
be done. To provide an adequate radiation shield, for instance,
would require a wall two meters thick filled with hydrogen.
Speaking of Mars, the
Jet
Propulsion Laboratory today released its first data archive of
images from the 2001 Mars
Odyssey spacecraft that went into orbit less than a year ago.
A few days later, On October 7, they released a set of 18,812 more images
from the immensely successful
Mars
Global Surveyor. The feature image is a high-resolution view
of a crater with gullies that appear to have been formed by liquid water.
Earths magnetic field and atmosphere
work together to shield us landlubbers from the rifle range outside our
bubble. To see how this works, recall our
May 10 headline on earths
storm windows. Mars does not have these protections.
Movies of astronauts prancing around on Mars are not realistic in
light of these risks. Man may go to Mars someday, but the project
will mainly underscore how blessed we are on the home planet.
Next headline on: Health.
Next headline on: Mars.
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