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Darwinist Chides Recklessness of Evolutionists 05/31/2004
The tendency of some evolutionists to engage in just-so storytelling was
intolerable to George C. Williams, an influential Darwinian. Throughout his
life he called them to accountability. Now elderly, he was recently honored by fellow evolutionists
at State University of New York, Stony Brook. Carl Zimmer described the
event in the May 28 issue of Science.1 The article
describes Williams attitude toward those who avoided the necessity for
scientific rigor in evolutionary explanations. (Emphasis added in
all quotes.)
Williams was struck by the ad hoc way that even prominent biologists
would explain an adaptation. Theyd claim that it had evolved
because it provided some benefit; often, an entire population or species
supposedly benefited. Williams recalls a lecture he heard by Alfred
Emerson, a zoologist at the University of Chicago, about why people age and
die. He said growing old and dying is a good thing, Williams
says. Weve evolved to do it so we get out of the way, so
the young people can go on maintaining the species.
I thought it was absolute nonsense, says
Williams. Whenever people like Emerson claimed that an adaptation was for
the good of a species, they never offered an explanation of how, from
one generation to another, that potential benefit produced real evolutionary
change. Williams suspected that in most cases, no such explanation
existed. For him, the primary engine of evolutionary change was the
one Darwin had written about in the Origin of Species: competition
among individuals of the same species. Most biologists in the 1950s
simply failed to think seriously enough about how natural selection
could produce adaptations, he says.
Williams has been especially harsh on the group selectionists, those who surmise
that natural selection can act on groups instead of just individuals.
Zimmer points to his 1966 classic, Adaptation and Natural Selection,
as the clarion call to see all adaptations as the result of
strict natural selection working on individuals. So how
did Williams explain things?
Take a school of fish, for example. It seems as if every individual cooperates for the good of the group, working with others to avoid predators, even if it means that individual gets devoured in the process. Williams argued that the schooling behavior could instead be the product of individual fish trying to boost their personal chances of survival--by trying to get in the middle of the school and by watching other fish for signs of approaching predators....
.... Williams argued that the decline of old age could be caused by pleiotropy--in other words, the harmful side effects of genes selected for advantages they offered during youth. Just as long as the advantages of these genes outweighed the disadvantages, they would become widespread.
In other words, organisms trade off one advantage against another (see
05/11/2004 headline).
Not all group selectionists have repented, however. Zimmer points out
one ardent skeptic:
Although Williams has convinced many people of the value of his ideas, the
notion that human behavior can be broken down into such finely tuned
reproduction-boosting adaptations is, to say the least, controversial.
The late Stephen Jay Gould liked to call this approach Darwinian
fundamentalism, and he credited Williamss Adaptation and
Natural Selection as the founding document for this ultimate
version of Darwinian reductionism.
Zimmer also touches on the disappointment by some of Williams followers
that his ideas on evolutionary medicine never really caught on.
Williams believed evolutionary theory might help doctors
by helping them identify natural selection at work in their patients.
The competition between a fetus and its mother for
the nutrients in the placenta, for instance, might explain the
life-threatening condition called preeclampsia. As Williamss followers
might see the situation, the mothers blood pressure might be
rising dangerously because the fetus is releasing factors
into the placenta that damage the walls of the mothers blood
vessels, thereby raising the resistance of her circulatory system,
so that it could glean more nutrients from the increased blood flow.
Participants at the meeting lamented that such Darwinian ideas are not making
a big impact on the way doctors think. A recent-convert doctor noted
that Theres a big barrier between people like me who are
physicians and people who are in biology departments. Perhaps
its just that all great ideas take time, Zimmer suggests. (For more on
evolutionary medicine, see 01/13/2003
and 06/25/2003 headlines.)
1Carl Zimmer, George C. Williams Profile:
Stretching the Limits of Evolutionary Biology,
Science.
Vol 304, Issue 5675, 1235-1236, 28 May 2004, [DOI: 10.1126/science.304.5675.1235].
Stephen Pinker claimed that George Williams was instrumental in making
natural selection an intellectually rigorous theory. Theres
nothing scientifically rigorous about any of this. The only thing Williams did
was try to leash in todays storytelling methods back to the original
storytelling method. One must
not twist the plot with group selection, but only invoke individual selection,
as Charlie proposed in the evolutionary Torah. Thus,
Darwinian fundamentalism must abide by the just-so storytelling method of
the Mosstuh
prescribed in the founding document of the Darwin Party.
Weve said before that if you removed the
personification
fallacy from evolutionary theory, little would be left. Raise your
hand if you think fish plan their schooling for survival, or babies in the
womb are plotting to steal from Mom.
Medicine gets along just fine without Darwinian fundamentalism.
Pregnant mothers facing surgery are not likely to be comforted by the thought
that their babies are competing with them for survival of the fittest. (If anything,
such teaching would only seem to promote abortion.) Doctors and hospital chaplains
prosper when they see the value in each individual life as a marvelous
creation of a loving God. If you care for your loved one in the hospital,
better help keep the Darwin Party advocates out. They dont
value compassion. They value selfishness.
Next headline on:
Darwinism and Evolutionary Theory.
Young Planet Around Young Star Claimed
05/28/2004
A star estimated to be one million years old already has a planet in orbit
around it, the Spitzer Space Telescope
(Hubbles counterpart for infrared astronomy) has found.
Astrobiology
Magazine says this challenges old theories. Alan Boss (Carnegie
Institute) thinks this supports his disk-instability model for planetary
formation, in which gas giants can form quickly, in just hundreds or thousands
of years (see 05/07/2001 headline).
If so, that has profound implications for the prevalence of planetary
systems similar to our own, he says. That means you can make
gas giant planets a major component of our own solar system in
a short time scale, in even the shortest-lived disc.
Spitzer also found organic material in the disks of some
stars, reports Jet
Propulsion Laboratory. The raw ingredients for life appears
to be in icy bodies
that might be comets. If so, Scientists believe these comets
may have endowed Earth with some of its water and many of its biogenic,
life-enabling materials.
It also means our solar system doesnt
have to be as old as claimed even under naturalistic presuppositions.
Funny that you can have young-earth theories for other stars, but not our own.
Raw ingredients for life again; sure. Iron ore
and gypsum are raw ingredients for buildings. Once upon a time, these
ingredients organized themselves into cities and factories and concert halls.
Next headline on:
Astronomy
Dating Methods
Origin of Life.
Cosmos Ages a Billion Years in One Day
05/28/2004
Physicists have found that a portion of the carbon-nitrogen-oxygen
reaction thought to participate in fusion reactions inside stars runs two
times slower than previously thought. The measurements were made in
the Laboratory for Underground Nuclear Astrophysics (LUNA), a lab nearly a
mile underground in Italy that offers more protection from cosmic rays.
The ripple effect of this discovery
is that all stars age more slowly than the textbooks claim, and the universe
itself may be a billion years older. For information, see
Physics Web or
Science
Now.
They measured one reaction in the present.
They did not measure 14 billion years. Notice how one small measurement
can have dramatic effects. Physics is supposed to be a hard
science, and now the textbooks have to be rewritten about something that was
thought to be pretty well understood. What about the soft sciences, and
the mushy or gaseous ones like evolutionary theory? What discovery
tomorrow might invalidate some measurement the Darwinists are trusting?
Next headline on:
Cosmology
Physics
Dating Methods.
DNA: The Mystery of the Ultraconserved Elements 05/27/2004
As we proceed into the age of genomics, the DNA codes of more and more animals
are coming into focus. The genomes of humans, chimpanzees, mice, chickens,
dogs, rats and pufferfish have been sequenced so far, and more are planned.
Evolutionists expected the ancestry of all living things to be traceable in the
genetic code by comparing the DNA of distant vs. closely-related
species, but the task has proven far more complicated than expected.
One recent finding has evolutionists really scratching their theoretical
heads, as summarized in the May 28 issue of Science:
There are 481 segments longer than 200 base pairs (bp) that are absolutely conserved (100% identity with no insertions or deletions) between orthologous regions of the human, rat, and mouse genomes. Nearly all of these segments are also conserved in the chicken and dog genomes, with an average of 95 and 99% identity, respectively. Many are also significantly conserved in fish. These ultraconserved elements of the human genome are most often located either overlapping exons in genes involved in RNA processing or in introns or nearby genes involved in the regulation of transcription and development. Along with more than 5000 sequences of over 100 bp that are absolutely conserved among the three sequenced mammals, these represent a class of genetic elements whose functions and evolutionary origins are yet to be determined, but which are more highly conserved between these species than are proteins and appear to be essential for the ontogeny of mammals and other vertebrates. (Emphasis in all quotes.)
Why is this unexpected? According to evolutionary theory, mutations accumulate over
time. Evolutionists believe that fish, birds and mammals all diverged on the family
tree and went their separate ways millions of years ago. Why, then, are there these
thousands of sequences that have not changed at all?
Mutations, in theory, could be harmful, beneficial, or neutral.
If harmful, natural selection should weed them out. If beneficial, natural selection
should preserve them, as Darwin said in a classic passage on gradualism:
Natural selection is scrutinizing the slightest variations, rejecting
those that are bad, preserving and adding up all that are good.
But most evolutionists also consider the gray area between, the
neutral mutations that cause neither benefit nor harm.
Exposed to mutagens in the environment over vast ages, each section of the genome
should accumulate neutral mutations, resulting in genetic drift. Presumably,
the amount of drift between two species (like rats and humans) would be a function
of the time since their lineages diverged, assuming a molecular clock
ticking with a steady mutation rate. (Is the molecular clock reliable?
See 04/20/2004 headline.)
Yet there are significant segments of DNA that are 100% identical
in the mammalian genomes, despite evolutionists belief their
ancestries diverged tens of millions of years ago. The puzzle is even more striking
when fish and bird genomes show 95% or greater sequence identity with mammals in these ultraconserved
elements for 300 to 400 million years. How could this be, especially when
some parts of the genomes appear to evolve rapidly? The Darwinian explanation
is that the ultraconserved regions have been subject to purifying
selection. This presumes that certain stretches of DNA are so important,
so indispensable, that natural selection protects them from change and is vigilant
about correcting mutations. Thus, purifying selection is the converse of
natural selection: instead of selecting positively for a new function, it selects
negatively against change.
Yet the authors of this paper do not seem completely satisfied with this
explanation. For one thing, not all ultraconserved elements are in the exons of active genes
that code for proteins. Many exist in introns and other regions thought to be
junk DNA. Why would natural selection preserve junk to a high degree
of accuracy for millions of years? The implication is that its not junk
at all, but something vital to the regulation of gene expression.
Non-exonic ultraconserved elements are often found in gene deserts that extend more than a megabase. In particular, of the non-exonic elements, there are 140 that are more than 10 kilobases (kb) away from any known gene, and 88 that are more than 100 kb away. (See also 10/16/2003
headline.)
Indirect evidence suggests that these segments, far distant from genes, are important
for regulating embryonic development or act as distal enhancers of the
genes. Simple scaffolding they are not.
It is true that these ultraconserved elements do not extend to
distant species, such as between humans and jellyfish or fruit flies; yet
extreme conservation is apparent even among the more primitive lineages, going
back to the earliest chordates. The best that evolutionists can explain
is that rapid evolution occurred in these regions in the past, then stopped in its tracks:
the bulk of the ultraconserved elements represent chordate innovations that
evolved fairly rapidly at first but then slowed down considerably, becoming
effectively frozen in birds and mammals.
When the scientists searched for conservation in shorter segments,
they found it everywhere:
A more extensive analysis of paralogs, based on a recent global clustering of highly conserved noncoding human DNA, reveals several further highly conserved intronic and intergenic elements in functionally equivalent positions relative to paralogous genes. These were not classified as ultraconserved by our stringent criteria. Indeed, if we merge alignment blocks of 200 bases, each with at least 99% identical columns, we obtain 1974 highly conserved elements up to 1087 bp long in the human.... If instead we demand at least a 100-bp exact match between humans and rodents, we get more than 5000 highly conserved elements. Tens of thousands more are found at lower cutoffs; for example, there is a 57-bp exactly conserved sequence overlapping an alternatively spliced exon of the WT1 gene which is invariant in mammals and in chickens and is largely conserved in fishes (fig. S1). The percentage of the conserved elements that overlap with a known coding region steadily rises from 14 to 34.7% as the length criteria defining these elements is reduced from 200 to 50 bp (table S6).
If experiments with less conserved elements in recent studies are any indication, many of these shorter elements are also functional.
The scientists put these findings into three possible explanations: (1) either
strong purifying selection is 20 times better at correcting mutations in these regions, or (2)
the mutation rate is 20 times slower, or (3) a combination of both.
The importance of these regions must be extreme if the strong negative selection
is the reason; does the conservation of active gene exons create structures
that must be extremely constraining over hundreds of bases of DNA?
Perhaps, but questions remain for either explanation. The article concludes
on a question mark:
On the other hand, if reduced mutation rates are the explanation, then the existence of regions of a few hundred bases with 20-fold reduced mutation rates would itself be quite novel. Although neutral mutation rates may vary depending on chromosomal location on a megabase scale, there is to our knowledge no evidence or precedent for the existence of short hypomutable or hyperrepaired neutral regions. Finally, the answer could also be a combination of negative selection and better repair in these regions, owing to some vital role that these elements play, such as self-regulating networks of RNA processing control in the case of exonic elements and self-regulatory networks of transcriptional control for non-exonic elements. In any case, the questions remain: What kind of elements associated with these processes would have arrived relatively early in chordate evolution and then become practically frozen in birds and mammals? And what mechanisms would underlie this, allowing them to resist virtually all further change?
New Scientist June 3
reports an experiment the deepened the mystery: mice born without the some of the ultraconserved
regions do just fine. This announcement produced gasps of amazement
at a scientific talk, the article says, because it was assumed if they were so conserved,
they must be important for survival. A team deleted 1000 highly conserved sequences shared
between humans and mice, and found the lab mice to be virtually identical
with normal mice in every measurement: growth, lifespan, metabolism, and overall
development. One of the deleted segments was over 1.6 million
DNA bases long. Perhaps backup copies exist on other chromosomes
for redundancy. The article puzzles over why some of the ultraconserved regions
showed higher levels of conservation than many genes. Whats most
mysterious is that we dont know any molecular mechanism that would demand
conservation like this, one researcher said.
1Bejerano et al., Ultraconserved Elements in the Human Genome,
Science,
Vol 304, Issue 5675, 1321-1325, 28 May 2004, [DOI: 10.1126/science.1098119].
It was supposed to be so easy. Where fossils and comparative anatomy failed to
confirm Charlies story, the genes would come to the rescue. Now this.
The only way the Darwinians can keep their story going now is to
propose that evolution is both lightning-fast and then frozen. Somehow,
brainless early chordates invented all kinds of elaborate molecular mechanisms,
then put them under the Law of the Medes and the Persians; these regions of DNA
could not be altered. Thenceforth, genomes underwent fantastic degrees of
evolution by natural selection, creating flying reptiles, flying birds, flying
mammals and flying fish, blue whales, giraffes, lizards, peacocks and
people, while these ultraconserved regions, exposed to all the natural forces
affecting the other parts of the genome, remained steadfast and immovable.
Strong positive selection played fast and loose with genes, duplicating and
recombining and mutating them and adding introns with seeming reckless abandon.
Simultaneously, strong purifying selection kept the ultraconserved regions
virtually untouched. All the while, genetic drift threw in a few
neutral mutations at random that somehow didnt touch the ultraconserved
regions. Ockham would slash away like a knight at this convoluted concoction of
explanations.
These findings may shed additional light on the mystery of
introns, those sections of DNA that the transcription machinery cuts out
and apparently discards (see 09/03/2003,
09/12/2003, 05/10/2004
and 05/19/2004 headlines). It would
seem evolutionists would predict just the important functional genes to be
conserved, if anything; why would introns be conserved, unless
they too are vital? There is clearly much we dont know yet.
While some differences between animal genes appear to be functions of their
assumed ancestral distance, many others do not. The picture is
getting very complicated for the Darwin Party. God must have had a
sense of humor.
Next headline on:
Genes and DNA
Darwinism and Evolutionary Theory.
Exercise Your Nerves 05/27/2004
A team of neurologists from UCLA and duPont Hospital for Children in Delaware
found that voluntary exercise improves regeneration of neurons, both for those
who work out, and for those recuperating after injury.
The abstract in PNAS1 states:
Recent advances in understanding the role of neurotrophins on activity-dependent plasticity have provided insight into how behavior can affect specific aspects of neuronal biology. We present evidence that voluntary exercise can prime adult dorsal root ganglion neurons for increased axonal regeneration through a neurotrophin-dependent mechanism. Dorsal root ganglion neurons showed an increase in neurite outgrowth when cultured from animals that had undergone 3 or 7 days of exercise compared with sedentary animals. Neurite length over 18-22 h in culture correlated directly with the distance that animals ran. The exercise-conditioned animals also showed enhanced regrowth of axons after an in vivo nerve crush injury. Sensory ganglia from the 3- and 7-day-exercised animals contained higher brain-derived neurotrophic factor, neurotrophin 3, synapsin I, and GAP43 mRNA levels than those from sedentary animals. Consistent with the rise in brain-derived neurotrophic factor and neurotrophin 3 during exercise, the increased growth potential of the exercise-conditioned animals required activation of the neurotrophin signaling in vivo during the exercise period but did not require new mRNA synthesis in culture. (Emphasis added.)
1Molteni et al., Voluntary exercise increases axonal regeneration from sensory neurons,
Proceedings of
the National Academy of Sciences USA, 10.1073/pnas.0401443101.
Couch potatoing cant be good for you.
Use it and improve it. The discovery that neurons can be regenerated should be good news
for those who have suffered injury. Physical therapy may be painful, but
it offers hope. Grin and bear it for as long as it takes. Hopefully youll be
grinning more eventually.
Next headline on:
Health
Human Body.
Human and Chimp DNA Compared 05/26/2004
Yesterdays entry Humans and Chimps Compared (see
05/25/2004 headline) dealt with outward characteristics
between us and our furry fellows in the zoo, but now we have DNA to compare.
Bonzo is asking, Am I my keepers brother? Evolutionary
scientists think so, and for the first time are beginning to quantify the
differences between us, at least in terms of our libraries of genetic
instructions. Initial findings are sure to provide lively debate over
how to answer Bonzo. According to a preliminary review of the ongoing
genome comparison project by Jean Weissenbach published in Nature,1
(see also Nature Science
Update),
there are both confirmations of expectations and whopping surprises. NSU
states, Thousands of chimp genes could significantly differ from those
in humans, and, Chimp chromosome creates puzzles; First sequence
is unexpectedly different from human equivalent.
(The same issue of Nature also contains the first detailed
analyses of human chromosomes 9 and 10.)
For the first time, scientists have compared two whole
chromosomes that have been completely mapped: human chromosome 21,
and its chimp counterpart, chromosome 22. As expected, there were many
similarities: less than 1% of the sequences that could be aligned had
differences in one base over another (single-nucleotide polymorphisms, or
SNPs). The actual statistical difference is not yet known accurately, however,
since SNPs exist between humans also, and only one chimps DNA has been
sampled. What surprised the team was the impressive number
of small-to-large sections of DNA that they believe had been either inserted
or deleted (indels) as the species diverged. Some 68,000 indels were
counted, most 30 nucleotides long or less, but some up to 54,000 nucleotides.
Some of the 300-nucleotide sections could be explained as transposable
elements, particularly Alu repeats, which seem to have occurred more often
in humans. Weissenbach expresses the reaction to this finding:
The number of single-nucleotide substitutions is in the range found
in earlier studies, but the frequency and size of the indels are
more of a surprise (emphasis added in all quotes.)
More interesting are the protein-coding regions. Here
again, there were expected similarities yet surprising differences:
Given the broad similarities between chimps and humans, many researchers thought that changes that alter amino-acid sequences would not be very frequent. Surprisingly, however, the consortium found that sequence differences in the protein-coding regions of genes are not a great deal less common than in non-coding genomic regions. But some of the affected genes might be pseudogenes defective copies of functional genes that have arisen recently. And, among 231 presumably functional genes that could be compared between chimps and humans, 179 have protein-coding regions of identical length; 140 of the predicted encoded proteins would differ by one amino acid or more, but probably with little or no functional impact. Of the other 52 genes, however, 47 show more significant structural changes.
(For more on pseudogenes, see 05/13/2004 headline).
And that wasnt the only significant difference. The scientists found
big differences in how some genes are expressed.
Weissenbach reveals some chagrin at how this complicates the answer to
Bonzos question:
The consortium could not resist making preliminary studies of the expression of the genes on human chromosome 21 and chimp chromosome 22 as well. Their analyses indicate that looking at just two tissues about 20% of these genes show significant variations in their expression. Extrapolation from these findings suggests that if this chromosome represents about 1% of mammalian genes, there may well be thousands of genes that either encode an altered protein or are expressed differentially in humans and chimpanzees. This will not simplify the search for the hypothetical key genetic changes that prevented us from remaining as apes.
Weissenbach points out another surprise; the FOXP2 gene, which some evolutionists
had suspected (based on mutation studies in humans -- see 08/15/2002
headline) was the key mutation leading to the origin of language in humans,
differs by only 2 amino acids in chimpanzees. There must be more to
language than this gene, because despite the similarity, Bonzo has a hard time carrying
on a conversation with us (see 05/25/2004 headline).
So these early findings are not yielding simple answers.
Even though analysis is just beginning, these findings do not seem to fit what
Darwin predicted, as Weissenbach hints in his conclusion: Even if the major physical, physiological and behavioural
differences between the two species do not result simply from an accumulation
of many small alterations, the challenge to find the most crucial changes
is still ahead. Maybe his whimsical opening sentence
has some prescient overtones: There are good reasons to continue the endeavour to
accumulate genome sequence data from the passengers of Noahs Ark.
1Jean Weissenbach, Genome sequencing: Differences with the
relatives,
Nature 429, 353 - 355 (27 May 2004); doi:10.1038/429353a.
Here is the abstract of the report from the International Chimpanzee Chromosome 22
Consortium in the same issue:2
Human–chimpanzee comparative genome research is essential for narrowing down genetic changes involved in the acquisition of unique human features, such as highly developed cognitive functions, bipedalism or the use of complex language. Here, we report the high-quality DNA sequence of 33.3 megabases of chimpanzee chromosome 22. By comparing the whole sequence with the human counterpart, chromosome 21, we found that 1.44% of the chromosome consists of single-base substitutions in addition to nearly 68,000 insertions or deletions. These differences are sufficient to generate changes in most of the proteins. Indeed, 83% of the 231 coding sequences, including functionally important genes, show differences at the amino acid sequence level. Furthermore, we demonstrate different expansion of particular subfamilies of retrotransposons between the lineages, suggesting different impacts of retrotranspositions on human and chimpanzee evolution. The genomic changes after speciation and their biological consequences seem more complex than originally hypothesized. (Emphasis added.)
2DNA sequence and comparative analysis of chimpanzee chromosome 22,
Nature 429, 382 - 388 (27 May 2004); doi:10.1038/nature02564.
Did you catch that? Weissenbach just said,
Even if the major physical, physiological and behavioural
differences between the two species do not result simply from an accumulation
of many small alterations... that indirectly but clearly says
they dont. Now what, do you recall, did Charlie propose as a test
to confirm or falsify his theory? If it could be demonstrated that
any complex organ existed which could not possibly have been formed by numerous,
successive, slight modifications, my theory would absolutely break down.
Thank you, Charlie! The implosion was very entertaining. (If you
think this will make evolutionists pack up and go home, you underestimate the power
of the Darwin Party to change the rules.)
Its time to lay to rest once for all this mythoid that humans
are 98.5% similar to apes. Its a prime example of the misuse of
statistics and the use of
card stacking. Some gullible souls swallowed
this bogus statistic and reasoned that chimpanzees should have the same civil rights as human
children (see 05/24/2002 headline); others
took it and decided humans should be lumped into the same
genus with Bonzo. Good grief. Now at last the truth is coming
to light.
Creationists have always expected similarities as evidence
of common design, and evolutionists have desperately longed for empirical
evidence of common descent. Were barely off square one in
comparative genomics. Clearly there are many questions and puzzles ahead for both sides.
Will comparisons with other chromosomes fit this trend? How similar would genes of other chimps be to this
individuals genome? What similarities
and differences will gorilla and orang-utan
genomes reveal? Are pseudogenes really evolutionary leftovers,
or do they have a function? (see 05/13/2004
headline). What is the effect of single-nucleotide
polymorphisms? How many SNPs can a genome tolerate? Do indels have a function?
How, and how often, do they occur?
Why so many introns? Why do Alu elements hop around the genome?
Its too early to answer these and many other questions, but the initial
findings are tantalizing.
Now that Darwinism has been falsified (if we can connect Weissenbachs
comment to Darwins test literally), there are still good reasons to
gather information from the passengers of
Noahs Ark
Early Man
Genes and DNA
Hippos Sweat Their Own Sunscreen
05/25/2004
You know that reddish fluid on hippo skin that turns brown? Its not just funny
colored sweat. Japanese scientists reported in Nature1 that
it acts as a sunscreen and an antibiotic. See also the
BBC News report
on this finding.
1Saikawa et al., Pigment chemistry: The red sweat of the hippopotamus,
Nature 429, 363 (27 May 2004); doi:10.1038/429363a.
It must have been a sight watching the Japanese
timidly wipe the face and back of a hippo to get their samples.
Wonder how many generations of hippos had
to die of skin cancer to get this lucky set of mutations established in the
population.
Next headline on:
Mammals
Amazing Facts
Can a Cell Improve by Lowering Its Standards?
05/26/2004
The title of a paper in PNAS is intriguing:
Artificially ambiguous genetic code confers growth yield advantage.
An international team claims to have created a beneficial mutation.
They removed the editing ability of a protein involved in translating the genetic
code, and got it to survive in a nutrient-starved environment. They
suggest that the resulting misspellings might have provided a primitive
cell with more options for evolution.
The protein they mutated is one of the family of 20 molecular machines
that hitches the correct (canonical) amino acid to its DNA template (anticodon).
One of these aminoacyl-tRNA synthetases has a hard time distinguishing between
two very similar amino acids, isoleucine and valine, so an additional editing
step corrects any typos that occur. These scientists essentially
removed the editor. Then they gave the cell stronger concentrations of valine
and other noncanonical amino acids, some of which are toxic. On the one hand,
the wild-type (normal) strain with the editor did better under high concentrations
of toxic noncanonical amino acids. But when starved for isoleucine, the
mutated strain, without the editor getting in the way, had more options.
This apparent flexibility led the scientists to suggest that such looseness in
standards could have been an advantage during the early evolution of the
genetic code:
In summary, a stable and robust strain with
an ambiguous code, and thus harboring statistical [e.g., non-coded] proteins, was
created by irreversible ablation of the editing activity of a single
tRNA synthetase. The WT [wild-type, or normal] strain, with its full complement of
editing activities, has the decided advantage of being more
resistant to the potential toxicity of elevated concentrations of
noncoding amino acids (for example, norvaline) (Figs. 3 and 4).
However, the editing-deficient strain with its statistical proteins
has the capacity to use noncanonical amino acids to fill in at
codons specifying (but starved for) particular amino acids such
as isoleucine. This capacity is advantageous in circumstances
when the organism is confronted with modest concentrations of
various amino acids that might have been the only available
building blocks for proteins in an early environment. The lack of
both specific resources and competing species may have favored
early organisms that could maximize yield and therefore maximize
the chances of spreading to new resource patches that
would otherwise go unused. Thus, organisms with the capacity
to generate statistical proteins could plausibly have served as
intermediates in the evolution of early living systems.
(Emphasis added in all quotes)
1Pezo et al., Artificially ambiguous genetic code confers growth
yield advantage,
Proceedings of
the National Academy of Sciences USA, 10.1073/pnas.0402893101, published
online before print May 26, 2004.
If lies and nonsense make you angry, you should be angry at this paper.
You should not be intimidated by the fact it was written by nine PhDs.
You should not be swayed by its presence in the journal of the prestigious
National Academy of Sciences. You should not be dazzled by the jargon.
If its baloney, it stinks as bad in a castle as in a shack.
These scientists, drunk on Darwinism, are trying to make us
believe that lowering your standards makes you stronger. By analogy,
firing the proofreader makes the newspaper better. Firing the coach
makes the athlete stronger. Firing the sergeant makes the army squad
better prepared for the contingencies of battle. Baloney, baloney,
baloney.
When in a restaurant, will you maintain better health by restraining your
baser appetites and restricting yourself to a
well-balanced meal? Of course. But if you were trapped in a
candy store, could you survive a little while on chocolate? Delicious
in small quantities, and better than
going hungry, that doesnt mean you should make it your daily diet.
These scientists
forced normal cells to be starved for isoleucine, an essential nutrient
for healthy proteins.
The normal cells did not want to eat the unhealthy ingredients that were
available; they had a coach ordering them to keep off the chocolate.
But other cells, free of such discipline, engorged themselves and at least
didnt starve. So the fatsos outqualify the hunks for the Olympics.
If you can believe that, you can believe the phony baloney premise of this paper.
Darwinian articles often dodge personal responsibility by
(1) flat-out bluffing, or (2) using
passive voice verbs that cover up their own shame. Look at this example:
The modern genetic code appeared ~3 billion years ago [Sez who?
Were you there?] .... The code itself is thought to have started in a
primitive form [Who thought so? Own up, you Darwin Party dogmatists],
perhaps with codons composed of
two rather than three nucleotides [where is the evidence for that?] and with different amino acids
not precisely assigned to specific codons [who made up this howler?] It sounds
pompously aloof to
say It is thought rather than I think this elaborate, complex
system of codes and translators began from random letters in a primitive
soup. By saying It is thought and leaving the subject
undefined, the propagandist gives the reader a subliminal impression that
somebody important thinks so, somebody authoritative thinks so, or that
everybody who knows anything thinks so. Dont be fooled.
Did these scientists find any evidence that their lowering of
editing standards actually made their variants fitter? No. Did they
demonstrate that the incorporation of noncanonical amino acids into the
protein conferred any new functional advantage? No. Did they
provide any empirical evidence that the genetic code began in a primitive
state, without proofreading? No. Did they provide any historical
evidence, or any analogies from present systems, that a complex, proofreading
system can improve by lowering standards? No. Did they use
certified lab techniques? Yes. Did they use their brains? No.
One thing they did do: they won Stupid Evolution Quote of the
Week: Because they could opportunistically use
whatever amino acids were available to complete a protein
sequence, organisms harboring statistical proteins could have
had a selective advantage in a primitive environment. Also, by
having many closely related versions of the same basic sequence,
variants with a particular catalytic activity could be produced.
These microvariants might have special adaptive advantages,
much in the way that one or more mutations in an enzyme can
enhance its activity or broaden its specificity. The selective
advantages of more complex organisms that were able to produce
their own amino acids and are dependent on higher
specificity eventually forced replacement of the ancient statistical
systems. Remains of ambiguous codes are still observed in
nature as in the Leu/Ser ambiguity in Candida sp. [prove it].
Coulda, woulda, shoulda. Gimme a break.
I thought I was in science class, not Fantasyland.
As explained earlier (see
07/21/2003 and
06/29/2003 headlines),
the aminoacyl-tRNA synthetase family of
enzymes comprise an exquisite, complex system that relies on accuracy, and they
know it. They admit, The genetic code is established in reactions catalyzed by
aminoacyl-tRNA synthetases, in which each amino acid is covalently
joined to its cognate tRNA. The tRNA bears the
complementary nucleotide triplet of the code corresponding to
the attached amino acid. In cases where similar amino acids might
incorrectly attach, Certain synthetases,
including isoleucyl-tRNA synthetase (IleRS), have a second
active site that clears mischarged amino acids and thereby
removes errors of aminoacylation. The existence of
code-translation and quality-control systems are hallmarks of
intelligent design.
Furthermore, they admit that incorrectly
attached amino acids can be toxic: Valine is the obvious starting point because of its
structural similarity to isoleucine. However, the effects of valine
are difficult to measure because of its general toxicity in minimal
media, caused by feedback inhibition of the isoleucine biosynthetic
pathway. In other words, not only are there systems to edit
out the wrong amino acid, but there are feedback pathways to ensure the toxic
substance does not proliferate in the cell. They admitted that the
noncanonical amino acids were toxic: As expected, high
concentrations of valine or norvaline ultimately became toxic in
the editing-deficient strain but not in its WT counterpart.
Only in a very specific environment, where the normal cell was starved and their
carefully-engineered mutant was given preferential treatment, did they see it
outcompete the champ. And on this, they want us to believe that life,
the genetic code, its translation machinery, molecular factories of tens of
thousands of protein motors and enzymes emerged by chance into
streamlined tunas, fast-focus
cormorant eyes, human composers,
and all the rich and varied life forms today. Thereon hangs a tale: not a tale of science,
but a fairy tale about a fictional place where one needs to believe six impossible
things before breakfast Fallacy in Blunderland.
Next headline on:
Genes and DNA
Darwinism and Evolutionary Theory
Dumb Ideas.
Humans and Chimps Compared 05/25/2004
In case you had an identity crisis last time at the zoo,
Current Biology can provide psychoanalysis. The May 25 issue posted two articles
side by side: one, simply entitled Humans,1 and
the other, Chimps.2 Various comparisons are
contrasts are drawn, including a few surprising facts, such as this
statement: Based on relative amounts of genetic variation, humans are
more endangered than chimps!
Both articles are noteworthy for what scientists dont
know, more than for what they do; a number of controversial issues are
discussed, such as whether humans are still evolving, how much humans are
affecting the environment, what races mean (if anything) and how they should
be defined, and whether humans should be reclassified with the chimps
based on sequence similarity of genes, or on the other hand, whether humans,
due to their cognitive/mental abilities,
deserve to be classified in their own kingdom: Psychozoa
(Gr., soul-life).
Neither article questions the Darwinian assumption that humans and chimps diverged
from a common ancestor 5-6 million years ago. But neither do they dispute
that the most distinguishing characteristic of humans is language. Linda
Vigilant writes in the Chimps article,
One defining human trait that chimpanzees lack is language. Although some captive chimpanzees and bonobos have been laboriously taught to use sign-language or communicate using icons on a keyboard, it seems that their communicative abilities in the wild fall far short of what we do with language, and so this chimpanzee–human difference remains profound.
(Emphasis added.)
How and when this skill arose in humans is unknown and the subject of much
dispute among primate zoologists.
See also 05/26/2004 headline, Human
and Chimp DNA Compared.
1David A. Hughes, Richard Cordaux, and Mark Stoneking,
Humans,
Current
Biology, Vol 14, R367-R369, 25 May 2004.
2Linda Vigilant, Chimps,
Current
Biology, Vol 14, R369-R371, 25 May 2004.
These articles contain some interesting facts and useful information, but
are imbued with the typical Darwinian fluff and storytelling about how our
primitive ancestors arose in Africa millions of years ago, invented fire
and language and took over the world (now
read this). Every
element of the plot has its detractors willing to point out
contrary evidence.
The first article wrongly repeats the mythoid that humans are
98% to 99% identical to chimpanzees in terms of genetic sequences, a phony
figure (see 10/25/2002 headline).
But it does rightly point out that gene expression
may be much more significant than the contents of the DNA library, as seen from comparisons
with the genomes of other organisms: In other words,
its not so much what you have, but what you do with what you have,
that matters. Thats true for
me and thee and the chimpanzee.
It is a
legitimate biological investigation to analyze human mammalian characteristics and to draw
comparisons and contrasts with
our fellow creatures. We are, as Wernher von
Braun once described it, souls cast into animal bodies.
Animals are fun to watch and have as companions. We have a lot in
common with them, especially other primates.
But there is no evidence, and there are numerous problems, trying to relate us all to
a common ancestor or reducing humans to mere genes in motion. Language,
for instance,
truly is a profound difference, with no parallel in the animal
world. But what is language without cognition, and what is cognition
without the ability to think in abstract thoughts? Even dogs and crows have intelligence, but no animal uses logic
or writes books on philosophy. How did the laws
of logic evolve? Why would natural selection produce a physicist able
to compute 23 decimal places of a cube root in his head? Why do we care
about justice? What is the survival value of writing a symphony?
Humanness is all about soul.
The articles also fail to recognize many other human
distinctives, such as conscience, bipedalism, naked skin and enhanced touch, blushing, laughter,
the moral sense, art, music and religion. None of these can be demonstrated
by a sequence of transitional forms, and none
can be explained by genetic mutations and natural selection; they go far
beyond the necessities of biological survival. Understood
instead as the handwork of a Designer who wants to be known by creatures
made in His image, they make
possible a unique realm of communication with one another and with our Maker that
no animal can share. Chimps have nostrils, but what makes us distinctively human is that our Creator
breathed into our common (human) ancestors biological nostrils the breath of life, and man became a Psychozoa,
a living soul (Gen. 2:7). Yes, we deserve a kingdom of our own, but whats a
kingdom without a
King?
Read the following passages with this view of man in mind:
Isaiah 57,
and I John 1-2.
They express issues and ideas no chimp will ever comprehend.
Next headline on:
Mammals
Early Man
Darwinism and Evolutionary Theory
Bible and Theology
Red Planet News; Ring World Beckons
05/25/2004
Lets drop in on Mars for the latest findings. The two
Mars Exploration Rovers are
still doing splendidly; Spirit
has its goal mapped out, a tour of the Columbia Hills where rock outcrops
beckon geologists. It recently crossed the 1.5 mile mark and set a
single-day distance record, covering more than a football field with its
autonomous guidance controls. Its turf, Gusev Crater, turned out to
be drier than expected. Over on the far side,
Opportunity
has been circling Endurance Crater wondering whether to drop in for a visit.
(Scientists want to be sure that it can get out again.)
The only surface-based evidence for past liquid water has come
from Opportunity. At several sites now, the rover detected layers and
concretions that are consistent with salty water existing for a period of time.
From orbit, however, one of the most striking evidences for water flow has just
become ambiguous. The BBC
News reports that the gullies streaming down some craters may have a dry
explanation: rockfalls and slumping sand in the lower gravity could produce the
stream-like channels, according to a paper in PNAS1.
With rovers and orbiters in good health, more surprises are sure
to come. Some of the coolest 3D pictures are now coming from Europes
Mars Express.
JPL hopes to catch up next year with its
Mars Reconnaissance Orbiter,
which, with its huge camera, will make a more comprehensive inspection of
Mars than any previous mission. Instead of resolving areas the size
of Bonneville Salt Flats, it will detect features as small as a Yellowstone
hot spring. It will also search deeper below the surface with its
ground-penetrating radar.
Not to be forgotten, the 2001
Mars Odyssey celebrated 10,000 mapping orbits recently, and the
venerable Mars Global Surveyor is still adding
to its huge inventory of photographs. All three orbiters are assisting the
rover program by relaying images to earth and helping identify features of
interest.
Politically, the future is bright for Mars exploration.
At a town hall meeting at JPL today, Senator
Sam Brownback (R., Kansas) and Congressman
Dana Rohrabacher (R., California) invited feedback from the scientists and
engineers about the Presidents
Moon,
Mars and Beyond initiative for NASA. Opinions were divided between
the value of manned vs. robotic missions, but no one discounted the power of
space exploration to inspire the next generation of adventurers.
Far beyond Mars, the giant Cassini
spacecraft is racing to home plate at Saturn. New images are coming in
almost daily at the Cassini website and also at the
imaging team site. Next
highlight will be a close flyby of the little satellite
Phoebe on June 11, sure
to keep the world wide-eyed at the nature of this wrong-way moon.
Just a fuzzy ball yet, Titan
is looming in the distance, the target of the daring and ambitious
Huygens
Probe. Built by ESA,
it will attempt to parachute below the smoggy clouds and reveal
the surface for the first time.
Educators will want to contact the Cassini
outreach department to get a copy of Ring World, a beautiful DVD
animation made especially for planetaria, and stunning on a wide-screen TV.
It gives viewers a theater-style
visual overview of the entire Cassini/Huygens mission to Saturn and Titan.
Highlights from the film are downloadable in QuickTime format.
1Shinbrot, Duong, Kwan, and Alvarez, Dry granular flows can
generate surface features resembling those seen in Martian gullies,
Proceedings of the
National Academy of Sciences USA, 10.1073/pnas.0308251101 (published
online May 28).
These are great days of planetary exploration.
We can feel somewhat like the townspeople of 1804 felt as Lewis and Clark
left St. Louis to explore terra incognita and started sending back samples
from upriver.
It will take years to sort out all the data and figure out what it means.
For now, its time to enjoy the ride of a lifetime.
Next headline on:
Mars
Solar System
Stem Cell Cover-Up?
05/24/2004
Stem cells, most have heard, hold promise for many life-saving cures.
Michael Fumento in Insight
Magazine claims that while adult stem cells have shown many positive
results, the media and science establishments tend to hype the benefits
of embryonic stem cells while glossing over the ethical and moral problems
they present.
Recently, Nature1 published an editorial
about the ethical controversy in Korea, in which a lab working on therapeutic
cloning pressured female students to donate their eggs for the study.
Noting that to some, the idea of creating a human embryo and culturing it
for several days to obtain stem cells that would be needed to grow such
grafts is morally reprehensible, the editorial says the last thing
cloning research needs now is further ethical controversy.
If the air is not cleared quickly, the consequences for Korean science
and for research into therapeutic cloning internationally could be severe.
It will be a tragedy if one of the greatest scientific stories of the year
ends up being remembered, in South Korea especially, as one that lost the
trust of the people.
1Editorial, Ethics of therapeutic cloning,
Nature 429, 1 (06 May 2004); doi:10.1038/429001b.
Nature seems to miss the point.
It is more concerned about whether the women were coerced than whether creating
human embryos just to destroy them is morally reprehensible or not.
While some techniques may really help those with debilitating genetic
diseases, we cannot assume scientists all operate from pure motives.
Fame and fortune seduce many a mortal. Just because some things can be done,
that doesnt mean they should be done; and in a Darwinian world, who
decides?
Next headline on:
Politics and Ethics
Health
Plant Evolution Modeled in Computer 05/24/2004
Simulation games are popular on computers. Darwinian biologists seem to
like them, too. What they cannot go back in time to observe,
they sometimes try to recreate in silico, inside the silicon chips of a computer.
Karl J. Niklas (Cornell) tried to simulate plant evolution, and wrote about it
in Annual Review of Earth and Planetary Sciences.1
He feels his contribution was to demonstrate that plants
had to be multitasking specialists: they optimized competing
interests in a dynamic environment, rather than achieving perfection with any
one structure. This involved tradeoffs; a horizontal stem might provide the best light-gathering
stance, for instance, but puts the plant at the burden of having to fight
gravitys leverage:
Indeed, when viewed with a biophysical or engineering perspective, none of the basic biological tasks plants perform can be maximized without decreasing or imperiling the performance of another necessary task. In this sense, the relationships among organic form-function generally involve optimization rather than maximization. But differently, single-tasked devices can perform their ascribed functions perfectly, at least in theory. In contrast, multitasked devices, whether organic or inorganic, invariably involve compromises and tradeoffsthey perform all of their ascribed tasks reasonably well, but no task perfectly. (Emphasis added in all quotes; for
more on evolutionary tradeoffs, see 05/11/2004 headline.)
The origin of land plants sparked one of the most
dramatic bursts of diversifying evolution in the history of life, he claims,
indicating the motivation for this project. In just 46 million short years from
the Silurian through the Devonian, these pioneering plants had diversified
phyletically and structurally to encompass
all of the major land plant lineages and the full spectrum of organizational
grades represented in present-day floras, with the exception of flowering
plants. He lists 11 innovations they introduced, from branching
stems to leaves to stomata with guard cells to seeds and wood.
They
employed sexual reproduction with alternation of generations and diversified
into an enormous number of morphologies, from mosses and ferns to pines and
giant redwoods. Why plant evolution was
so rapid during the Late Silurian-Devonian time interval remains problematic,
he admits. Lessons drawn from evolutionary theory provide
limited insights Thus, computer modeling to the rescue.
For his model, Niklas used
a principle proposed by Sewall Wright in 1931: the fitness landscape, a
heuristic device that visualizes evolution as
a series of walks over fitness landscapes with adaptive hills and
maladaptive valleys. On this landscape, Niklas placed his digital
plants and gave them four competing problems to solve: (1) water conservation,
(2) mechanical stability, (3) spore dispersal, and (4) light interception.
He defined the fitness of each combination and set the plants on their
adaptive walk on the fitness landscape (peaks on the fitness
landscape imply high fitness and good adaptation, and valleys imply poor
adaptation and low fitness). First, he used a stable fitness landscape,
then he ran it again with a dynamic landscape, which would reflect a more realistic
environment changing over time. He found that overall fitness levels
dropped considerably in the dynamic fitness landscape. How does one
decide when to vary the landscape? Unfortunately, there are no
a priori rules for how or when a particular landscape changes, he says.
Therefore, the number of permutations of shifting landscapes is literally
astronomically large. So he looked to the fossil record for
guidance, and also tried to learn from repeated trials what seemed to
match natural history.
In a brief aside, he compared his results to the predictions of
Zimmermans telome theory the idea that all of the diverse morphologies of
plants can be reduced to the action of five developmental processes
planation, overtopping, reduction, recurvature, and webbing acting
on branched points (telomes) and unbranched points (mesomes). But
telome theory is far from a complete story:
The telome theory has been criticized, and rightly so, for a variety of reasons (Niklas 2000, Kaplan 2001). One obvious problem with the theory is its vagueness regarding the developmental mechanisms responsible for overtopping, planation, etc. Indeed, these terms are descriptive rather than explicative in nature. Another criticism is that the telome theory never explains why certain morphological transformations occur as opposed to others, nor does it stipulate the sequence of processes foreshadowing the appearance of a particular morphology. Why should planated and webbed lateral branch systems evolve? Are the leaves of ferns or seed plants functionally adaptive in terms of light interception or some other biological requirement? Did these megaphylls [broad leaves] evolve as the result of the simultaneous operation of reduction, overtopping, planation, and webbing, or did planation and webbing occur after reduction and overtopping? Questions such as these can be answered retrospectively (and only in small part) by examining the fossil record, but the telome theory sheds little light on them.
So why use it? Because the terminology is useful: Zimmermans ideas are nevertheless useful because they provide a lexicon of terms for the morphological transformations observed in the fossil record and for those identified by the computer simulations presented here. In turn, these simulations suggest the adaptive significance of the transformations envisioned by the telome theory.
Niklas produced some digital plants that succeeded in adapting
to his fitness landscape, but warned against overinterpreting the results.
In his concluding Caveats and Desiderata,
he said,
Computer models such as the ones presented here are heuristic tools. They provide an opportunity to test assumptions about how a particular biological or physical system operates or behaves. Their validity can be evaluated by comparing predicted with observed behavior. When observation and prediction disagree, the assumptions upon which a model rests are either incorrect or incomplete. However, the obverse is not true. When predicted and observed behavior agrees, the assumptions upon which a model rests cannot be said to be sufficient and necessary. The reason is simple model can describe the behavior of a system for the wrong reasons. This caveat is important, because the only rigorous test of a computer model is to experimentally manipulate the system it purports to describe and to see if the model predicts the outcome for each manipulation.
Niklas did not perform any such rigorous experimental tests with real plants.
He explains why, but still claims his model had merit:
Unfortunately, we cannot experiment with history. We can only observe it. For this reason, the most conservative interpretation of the simulations presented here is that six general properties emerge logically
(mathematically) from the assumptions made about early vascular plant evolution. These properties are as follows: (a) the number of equally fit morphological variants is predicted to increase as the number of functional tasks subject to selection increases; (b) the relative fitness of these phenotypes decreases as the number of tasks increases; (c) therefore, morphological diversification is easier on complex as opposed to simple fitness landscapes; (d) constraints on how morphology can be developmentally altered do not a priori limit the number of equally fit variants that can be reached by adaptive walks; (e) however, the relative fitness of these variants is significantly lower than the phenotypic optima that can be reached by unfettered adaptive walks; and (f) adaptive walks on shifting fitness landscapes (used to mimic changes in the focus of selection) identify morphological optima that often differ significantly from those on stable fitness landscapes (used to mimic constant selection).
He points to a few living vascular plants as confirmations of these general
predictions, and concludes that the six properties also make biological sense.
Feeling thus justified, he concludes,
Computer simulations of morphological evolution are still very much in their infancy, especially in terms of constructing morphospaces and understanding the developmental mechanisms that permit or confine phenotypic transformations in them (see Thomas & Reif 1993, McGhee 1999, Niklas 2003). However, as conceptual tools, they provide opportunities to explore the logical consequences of popular metaphors for evolution, such as Sewall Wrights adaptive walks on fitness landscapes, and by so doing, quantify the possible biological structure and dynamics of opportunistic historical events that distinguish some evolutionary episodes as more adaptive than others.
1Karl J. Niklas, Computer Models of Early Land Plant
Evolution,
Annual
Review of Earth and Planetary Sciences, May 2004, Vol. 32, pp. 47-66
(doi:10.1146/annurev.earth.32.092203.122440).
You can prove anything on a computer.
This is so oversimplified, so narrow-minded, so dumb, its a wonder any
journal would publish such tripe. Its only because biologists have offered their
brains in sacrifice to Darwins image that they cannot see the illogic of their own positions.
Niklas came close, and had a gem of insight here or there,2 but failed to see
the worthlessness of his simulation.
His fake plants evolved because he
made them evolve. Weve seen this so many times before with other
computer models. It is not evolution, it is intelligent design.
These modelers set the fitness goals, define the criteria for success, and reward the
ones that get there. Natural selection has no such guiding intelligence.
2(One perceptive insight he shared
was that agreement with predictions does not necessarily make the assumptions
of ones model sufficient and necessary. But then, contrary to his
requirement for rigorous experimental testing, he failed to deliver any.)
To get a sense of the futility of this model, imagine my writing a simulation about
the evolution of computers. I define fitness scores for screen visibility,
mouse responsiveness, keyboard ergonomics and other factors I deem worthy,
then start some high-tech devices evolving and reward those that succeed in
terms of outward conformance to my specifications. Maybe I wind up with
a variety of objects that look like palmtops, laptops and desktops. But I describe
nothing about programmers or users, nor the thinking required to make a
computer. Is such a result worth anything more than a cheap
science-fiction game for kids?
Lets understand something important here. Plants
have DNA. They are adapted because they have complex, specified information
in their genes. Watching little digital organisms evolve branches
and leaves and other structures might be cute, but says absolutely nothing
about how the genetic information and developmental pathways achieved the
structures, and more importantly, says nothing about the intricate cellular
processes, like photosynthesis and cell division and sexual reproduction and
regulation of stomates originated and employed the morphologies.
Niklas halfheartedly admitted as much. He should know that plants
at the cellular level are fantastically complicated factories of molecular
machines. Which is more intricate: the cover of your computer or the
chips and software inside? If I only pay attention to the morphology of the external
parts, I have missed the whole point of what is required to make a computer, or a plant.
The fitness landscape metaphor is only a metaphor,
but it is actually a more accurate metaphor than a ramp. Early
evolutionists mistakenly pictured Darwinism like a ramp, on which organisms
marched onward and upward. Progressivists viewed natural selection as a
fitness ratchet leading inevitably to bigger and better things.
Knowledgeable evolutionists today realize this view was simplistic. There are
peaks and valleys of fitness (whatever that is; see Fitness
for Dummies, 10/29/2002). Picture marbles rolling around on a surface
constantly in motion, with peaks and pits forming and reforming at random locations.
Real marbles might roll uphill for short periods, but gravity will ensure
they tend to inhabit the valleys and pits most of the time. The gravity
in the fitness landscape is the second law of thermodynamics the
inviolable trend toward entropy. Evolutionists want us to believe that
natural selection will overcome this entropic gravity and force the marbles
to the tops of the peaks. Trouble is, even if they got there and stayed there, they
would be stuck, unable to evolve further without dropping down into the
valley again and losing what fitness they had. Now realize that the
adaptive peaks are like Devils Towers and Space Needles: the exquisite
engineering seen in whale flippers and
cormorant eyes
and spider silk and the other things the biomimetic engineers marvel at are
so improbable as to be unthinkable for undirected processes to achieve
(despite Richard Dawkins claims that chance and natural selection can climb Mt.
Improbable another fallacy proved by worthless computer
simulations). No matter, its just a metaphor, and
metaphors bewitch you. Engineering
doesnt emerge without design except in the imagination of evolutionists.
Niklas said, Unfortunately, we cannot experiment with
history. We can only observe it. When was the last time
you observed history? If you watched a historical event like 9/11, you
observed it in the present. Did you observe the fall of the Roman empire, or the building of
Stonehenge? Did Niklas observe the origin of land plants?
We dont observe history. We believe eyewitness
accounts and examine artifacts. Even recordings (artifacts viewed in the
present) can have biases, and there
were no videotapes of the origin of plants, anyway. We can observe fossils as they are in the
present, but can only infer how they got there; piecing scattered fossils into
a sequence is even more fraught with difficulties (see 05/21/2004
headline). There is no observable
history of evolution. There is a story imposed on the artifacts
seen in the present. An eyewitness account from a credible witness
that can be corroborated by observation is superior to a story weaved out of
personal bias and propped up by circumstantial evidence.
By the way, there is
a credible eyewitness account that fits the evidence.
It will tell a biologist all he needs to know about the emergence of plants
and how they achieved their high levels of adaptive fitness. It explains
not only the outward morphology, but the programming and developmental
constraints that maintain fitness.
Its in that best seller in your hotel room drawer. Lets start at
the
very beginning, a very good place to start. (Nothing comes from nothing;
nothing ever could.)
Next headline on:
Plants
Darwinism and Evolutionary Theory
Next dumb story.
Cormorant Eyes Rapidly Refocus in Dives Into Murky Water 05/24/2004
Youre hang gliding over a lake, and you spot
a fish below. From your hovering position, you drop into a rapid, steep dive
headfirst into the water.
Whoops; your eyes just went out of focus, and you lost your fish in the murky
depths. Too bad youre not a cormorant.
Cormorants (a kind of waterfowl) are able to adjust the lenses
of their eyes from air-focus to water-focus in a split second, according to
an article in Current Biology May 25.1 Four Israeli
scientists bedazzle us:
Cormorants (Aves; Phalacrocoracidae) are active fliers, yet they forage by pursuit diving and capture of fish with the bill. In air, the cormorants cornea provides most of the total refractive power of the eye. Underwater, however, corneal power is lost, as the cornea is now bathed in liquids of similar refractive index. The retention of a sharp image, while performing precise visual tasks underwater, requires that the cormorants optical system compensates for the loss of refractive power of the cornea. In addition, the underwater photic environment differs markedly from the aerial one, with the image quality undergoing a rapid deterioration through scatter and absorption. Upon submergence, cormorants compensate for the loss of corneal power (>55 dioptres, D) and rapidly (>1000D/sec) attain a state of emmetropia, i.e. they are well focussed, by marked changes in the shape of their very flexible lens.
(Emphasis added in all quotes.)
The scientists somehow acquired accurate measurements of the birds optical
acuity in air and in murky water. The birds vision is as good as that
of fish, seals and whales who spend most of their time underwater. Cormorants,
however, need outstanding vision in water as well as air.
The requirements to perform precise visuo-motor tasks in two optically different media, and the uniqueness of the lenticular system of these birds, they note
with some admiration, make the vision of pursuit-diving birds a model of vertebrate capacities at the extreme.
1Strod, Arad, Izhaki and Katzir,
Cormorants keep their power: visual resolution in a pursuit-diving bird under amphibious and turbid conditions,
Current
Biology, Vol 14, R376-R377, 25 May 2004.
Strod and Arad work at the Hula Valley
Nature Preserve in northern Israel; perhaps that is where they made some of the
observations. TV nature programs sometimes show these birds in action.
Next time you see one, youll have reason to appreciate even more the
elegance of their fishing expertise.
Once again, this excellent intelligent-design paper was marred
by a worthless insertion of the E word, probably because Current
Darwin-Worship wouldnt print it otherwise: they conclude,
Low turbidity levels are commonly encountered in natural water bodies and
thus are of crucial importance in our understanding of the evolution,
sensory ecology, and micro-habitat selection in aquatic organisms.
This, as usual, means that nobody understands how these optical marvels
evolved, but the Darwin Party hopes to some day. I wonder if the
authors really buy that promissory note. So how many billion cormorants died of
starvation till they got their optics right? Sorry, 990 dioptres per second
isnt good enough; lets bump it up to 1000 and make sure all the less
fit go extinct. For sure. We dont need such evolutionary
whistling in the dark. Cormorants knew the tune from the top, and
in the right key, too; see sharp or be flat.
Next headline on:
Birds
Amazing Facts
Early Humans Refused to Be Classified
05/24/2004
We humans like to classify things, and when we classify ourselves, we sometimes
get into trouble. We create groups of us and them
that breed conflicts. A fight of sorts is going on between paleoanthropologists,
reports Science News1 May 22, over what to make of some skulls
found in a cave in Romania. The skulls are blurring the neat categories most
anthropologists had made to distinguish primitive and early modern humans.
The discovery last June, an Indiana Jones-like adventure involving cave
diving into a tomb-like chamber and finding bones of cave bears and human skulls,
has the makings of a good movie. But now that the skulls are in the lab,
scientists are scratching their own skulls figuring out where to fit them in the
human lineage. The problem is that they display both primitive
and modern traits: modern cheek bones and no brow ridges, but
heavy-set jaws and massive teeth. Named Oase (wah-see) after the cave in which they
were found, the skulls also contain multi-ridged third molars larger than those
of Neanderthals. These bones and another found in Portugal that displays
a potpourri of traits from both species are causing some
anthropologists to suggest that all these
varieties of early humans interbred. That threatens to
overturn favorite theories about human evolution:
The Oase skulls strange combination of modern and archaic characteristics
underscores scientific confusion about how to define anatomically modern humans,
[Erik] Trinkaus [Washington U at St. Louis] adds.
Paleontologists have created an artificial [anatomical] Rubicon
that the Oase fossils violate, he says. The blend of
traits on these specimens contradicts the existence of a straightforward
evolutionary process [during the Stone Age] in which modern humans came out of
Africa and replaced everyone else.
(Emphasis added in all quotes.)
In more serious jeopardy is the practice of classification
itself. One way to make sense of fossils such as the Portuguese
child and the Oase skull is to stop assuming that each ancient Homo
species existed on a separate branch of an evolutionary tree, says Trenton W.
Holliday of Tulane University in New Orleans.
1Bruce Bower, Humanitys Strange Face,
Science News
Week of May 22, 2004; Vol. 165, No. 21, p. 328.
Is it possible to be racist with long-dead humans? There is a great deal
of variation among people groups living today (Watusi and pygmy, etc.), yet they are
all 100% human and it is very unPC to discriminate between them. Variation
within a species can be quite pronounced. Anthropologists seem to be too
quick to sort bones into evolutionary lineages without considering the
environmental influences on anatomy, such as diet: chewing tough meat might
accentuate brow ridges and teeth, for instance.
This long-fumbling practice of classifying
human bones into separate species so as to weave a tale of evolution should be
scorned for its phony discrimination. Its not science; it is dogma looking
for support. Primitive, my tooth. These deceased brethren could
probably outrun and outsmart any modern paleoanthropologist on the trail of
a cave bear. That takes brains, physical fitness, and complex DNA that
is anything but primitive. Maybe the new paradigm is that humans have been
devolving from highly intelligent, skilled, artistic hunters into lazy, obese,
foolish storytellers.
Next headline on:
Early Man
Do Fossils Show a Worldwide Record of Evolution? 05/21/2004
The fossil record provides the acid test for evolutionary theory. Everyone who
walks a real dog by a poodle
knows that small-scale variation occurs among living species, but non-evolutionists
get understandably annoyed when Darwinians extrapolate the observed variations
to encompass all of life: as if to say, because finch beaks vary, therefore
humans had bacteria ancestors. Darwins bold hypothesis connected
all living things into a branching tree of life. He claimed that,
ultimately, whales and oaks and kangaroos and seashells could trace their
ancestry to single-celled organisms. The only way to connect this hypothesis
to actual earth history is to examine the fossil record. Does the record of
the rocks show a sequence of life evolving from simple to complex?
Those who assume so might be disturbed by a paper in the
Annual Review of Earth and Planetary Sciences1 by Peter M.
Sadler (UC Riverside). The annual reviews are a good place to catch up
on the state of the art of this or that discipline. Sadlers review
concerns quantitative biostratigraphy, the attempt to correlate global
fossil data. Things are looking up in this field; fossil data are becoming
more available in large databases, and computers are making the number-crunching
easier. He takes the reader through the latest computer algorithms
that attempt to correlate fossils from tens, hundreds, or thousands of sites around the world
into a unified, global time sequence.
Though his lengthy paper never questions evolution
(and hardly mentions it), and while written with a tone of scholarly
confidence, it gives a distinct impression that biostratigraphy
is more art than science.
Imagine an ideal record where everything that had died left
a fossil, and these fossils accumulated upward, layer upon layer, since the
beginning of life. If evolution had occurred, each species would have
a first appearance in the record (a first-appearance datum, or FAD), and
when it went extinct, it would exhibit a last-appearance datum, or LAD.
These horizons would form a vertical timeline for each species,
which could be correlated with similar ones around the world.
Assume it were also possible to reliably date each layer. Tracing the
history of life, then, would be a piece of cake; actually, a layer cake,
because the layers would preserve a clear sequence, from oldest at the bottom,
to youngest at the top. The fossils they contain, if evolution had
occurred, would clearly exhibit increasing complexity as each new phylum,
order, class, genus and species appeared through time.
Alas, as with most things in life, the
situation is far from being so simple. Sadler points out a number of
difficulties that make global
correlation of fossil-bearing strata a challenge:
Imbalance: Most of the record consists of seashells.
Richly fossiliferous sections are more common in the marine
invertebrate record, he notes. (Marine invertebrates actually
comprise about 95% of all known fossils. That means all the large
mammals, land plants and dinosaurs make up a tiny fraction of the record).
In a few studies, he claims, biostratigraphers can produce sequences of
some marine invertebrates to resolutions of 10,000
to 50,000 years, though resolution is usually much lower.
Gaps: Relative to marine Cenozoic correlation problems,
nonmarine instances suffer from a lack of continuous sections, he
says (emphasis added in all quotes.) Instead of showing a continuous
record of evolution, the record is discontinuous or jerky, riddled with gaps.
(Stephen Jay Gould once remarked that the near universal presence of
gaps in the fossil record is the trade secret of paleontology.)
Many sites display isolated faunas that do not overlap with
other sites. Sadler explains how the gaps affect biostratigraphy:
Biology demands that the global abundance of a species cannot fall to zero within its temporal range. Unfortunately, species distributions are patchy, the patches may shift, few individuals are fossilized, and fossils may be overlooked. Consequently, the local taxon ranges observed in single stratigraphic sections reflect local conditions and do include gaps. More critically, and for the same reasons, gaps of unknown extent occur at the ends of observed ranges. Thus, local horizons of highest and lowest finds of a species do not correspond to the global FAD and LAD. The discrepancies vary from place to place, and locally observed taxon range charts contradict one another in detail concerning the sequence of range-end events.
For these and other reasons, Sadler warns that it is
crucial to acknowledge that local first and last appearances are also uniquely troublesome as recorders of calendar events: The local stratigraphic horizons at which they are observed do not reliably reproduce the true global sequence of origination and extinction events. Discrepancies must be expected because local appearances and disappearances are likely to be migration events and probably displaced by lapses in fossilization.
Reworking: Many fossils have been transported or reworked,
destroying the temporal sequence information. (Some of the best-known fossil sites,
such as Dinosaur National Monument, La Brea Tar Pits, and Petrified Forest
present this difficulty.) The biostratigrapher cannot assume the apparent
FAD-LAD horizons represent the true history of the fossils, because many processes can disrupt the correlation
of fossils with strata: floods can transport fossils from one
location to another, burrowing animals can rework the deposits, or
deposits can fall into a cave or be washed down well bores into older strata.
Moreoever, it is not always easy to tell when or how much reworking has occurred.
Severe caving may require abandoning FADs altogether, he says.
Marine microfossils are especially subject to reworking. The sometimes cryptic
signatures of reworking may go unrecognized, and their impact on the record may be significant.
Yet the biostratigrapher needs to rely on databases that are
contaminated by this problem: Large integrated databases will combine taxa that are prone to reworking with those that are not. Decisions about the likelihood of reworking, or the most palatable assumptions concerning reworking, currently force a dichotomous choice between methods that seek maximal ranges and those that seek probable ranges. No method yet embodies a satisfactory theory of reworking that can obviate this unfortunate choice, he laments, yet the
computer models often assume that little or no reworking occurred.
Decreasing Information with Age: The farther back in time, the less reliable
the inputs: for instance, Paleozoic instances include less radiometric,
paleomagnetic, and stable isotopic data. The known instances usually
do not overlap. The large Paleozoic correlation problem in Table 1
includes many pairs of sections that do not overlap in age. They must be stacked in the correct order and impart to the problem a significant component of seriation. Seriation is the essence of the problem when the data are isolated faunas.
Considering these difficulties, is it even possible to produce a global correlation
of fossils into a time sequence? Sadler
apparently feels the problem is tractable and current work is promising, but the use of simplifying
assumptions is unavoidable. Some are reasonable (e.g., a FAD must precede
its LAD, and proven coexistences must be honored). Also, certain geological
events provide a means of independently correlating fossiliferous strata.
A volcanic ash fall, for instance, might be traceable across a large region,
or magnetic reversals or global climate changes can provide clues.
In addition, paleontologists try to hitch the data to milestones obtained
via radiometric
dating (although these are usually not applicable to the sedimentary strata that
contain fossils). Putting it all together is easier said than done:
The way to improve the resolving power of the geologic calendar is obvious but not easyincrease the number of events and thus reduce the average time intervals between them. There is no shortage of species to add. The real problem is to keep all the appearance and extinction events in their correct sequence. The difficulty increases dramatically with the number of species for three reasons: First, the number of possible sequences of appearance and extinction events grows faster than exponentially as a function of the number of species (Figure 1). Also, events that are separated by smaller time intervals are more likely to be preserved in contradictory order from place to place. Finally, as the list of species grows it must include more provincial organisms that will be missing from many locations.
The bulk of Sadlers paper concerns various clever mathematical algorithms
biostratigraphers have developed to approach this huge puzzle. Some make use of the principles of
operations research. Some employ heuristic algorithms or
manipulate matrices with iterative processes to try to converge on a
solution. Each method is best suited to its own data type, each makes
its own assumptions, and each has its shortcomings. Consequently,
he cautions the reader not to expect too much:
The true global sequence of FADs and LADs is not knowable in detail and the locally preserved sequences of highest and lowest finds are incomplete and contradictory. The practical and tractable problem is to find a hypothetical sequence of FADs and LADs that enjoys the lowest net misfit with all observations in local range charts and isolated faunas, or requires the smallest net adjustment of all observed ranges. It is an optimization problem.
Sadler freely admits that contradictions are inevitable. Much of his paper
concerns dealing with misfits: how to measure misfits, and how to minimize
them. Some of these misfits
are those that contradict the expectations of evolution. One of the criteria for success
seems to be how well the result of an algorithm agrees with the correct
phylogenetic sequence: Procedures for fitting the best LOC [line of
correlation on the graph] include deterministic regression techniques ...
and heuristic search algorithms from evolutionary programming,
he explains. Congruence with evolutionary phylogeny seems to define Sadlers
best-fit or optimal sequences. In the
opening, he indicates that evolutionary sequence information
takes priority over geological dating information:
Geologic time correlation proceeds by constructing a global calendar of past events in which the appearances and extinctions of fossil species dominate the entries. Other events include changes in ocean chemistry, reversals of Earths magnetic field, and the deposition of volcanic ash beds, some of them dated by radiometric methods. The challenge is to merge incomplete inventories of physical events and partly contradictory faunal successions from many local thickness scales (measured stratigraphic sections) onto a single calendar that correctly sequences all the events and scales the time intervals between them. Because correctly sequenced events serve the purpose of correlation, with or without knowledge of their numerical ages, sequencing is the fundamental task and the focus of this review. Numerical estimates of age are available for very few events, especially in the older periods of the Phanerozoic. Furthermore, estimates of the relative size of time intervals between events rest largely upon questionable assumptions about rates of sediment accumulation and biological turnover. Consequently, scaling and calibration tasks are best attempted after the optimal sequence of events has been determined.
In the conclusion, titled The Remaining Challenges, Sadler
reveals his disciplines dependence on evolutionary theory,
and drops hints that it needs to be more of a two-way street:
Paleobiologists can extract considerable information about the phylogenetic sequence of taxa by analyzing the morphology of fossils, without recourse to stratigraphic information. But these insights do not yet aid the correlation task as much as they might. To date, more effort has been committed to questions concerning the place of stratigraphic information in cladistic analyses of morphology than to the possibility that the resulting cladograms provide independent evidence of sequence that can improve biostratigraphy.
How this avoids circular reasoning he does not explain.
Instead, he suggests how evolutionary systematists can help by revealing, for instance,
the order of FADs that best fits the morphologic information.
But even with their assistance, he sees three looming challenges
posed by modern stratigraphic databases:
- Deciding on a single method: First it is desirable to integrate more data types into a single method. Every method, regardless of the data to which it is suited, must seek a sequence of events. Consequently, the best way to suit all the data is to invert the problem, working through a suite of permutable sequences and achieving iterative improvements as judged by the fit between the sequences and the data.
- Speed vs. Completeness: But the second challenge is to manage considerably larger data sets without loss of speed. The flexibility of the inverse approach sacrifices speed. The fastest algorithms are those that are tailored to specific data types and work forward from the data to the best solution.
- Reworked fossils. As quoted above, No method yet embodies a satisfactory theory of reworking that can obviate this unfortunate choice between maximal ranges and probability ranges (that is, choosing between incorporating all
the data into the model vs. using the data that produce the expected result).
. Are biostratigraphers stuck in a rut? He ends, As in the past, answers to all these challenges might be discovered by recognizing analogies with problems in other disciplines and adapting their numerical methods.
1Peter M. Sadler, Quantitative Biostratigraphy: Achieving
Finer Resolution in Global Correlation,
Annual
Review of Earth and Planetary Sciences,
May 2004, Vol. 32, pp. 187-213
(doi:10.1146/annurev.earth.32.101802.120428).
It must be acknowledged that Sadler neither doubts evolution nor
intended to cast doubt on evolution in this paper. A casual reading would lead one to
think that everything is fine and the Darwinians are making great progress. But, if read
perceptively, without
evolutionary assumptions, it is quite revealing. Where is the proof of the pudding?
Where is the evidence in the fossil record to prove Charlie right? Sadler
exposes to view what a huge optimization problem he has on his hands.
The best he can do is try to keep the contradictions and misfits to a minimum.
As with everything else in evolutionary theory, the tweak space is greater than the
data space. Only massive inputs of questionable assumptions keep the story intact.
A story of evolution
clearly doesnt jump out of the data, as if it were an intuitively obvious fact that only an
obscurantist would deny. No; instead of supplying the Darwin Party with the proof
they desire, he needs to ask them for
help as he stumbles through a contradictory, unmanageable, confusing, formidable task.
Its reminiscent of the impossible dream the molecular phylogenists face
trying to keep Charlies imagined tree of life connected to reality
(see 07/25/2002 and 06/13/2003 headlines).
In the end, they must assume evolution to prove evolution. Instead of
taking the evidence where it leads, they apply similar
heuristic optimization approaches to handling overwhelming and
contradictory inputs, where optimal means mostly agrees
with Charlie, if we neglect the misfits.
Notice that gap is a loaded word. What if it is a
brute fact that the data are discontinuous? Then that is the true sequence; there
are no gaps. A gap is only a gap if you assume evolution. Why not face
the evidence squarely: living taxa are discontinuous, and fossil taxa are discontinuous.
They appeared abruptly, and some died abruptly. If it werent that such an
admission destroys Darwinism, that would be what the textbooks would
matter-of-factly present.
Skeptical readers are encouraged to put aside questionable assumptions
about rates of sediment accumulation and biological turnover, and to study this article without Darwin-tinted
glasses on. Look at the fossil data as objectively as possible. What is found?
Multitudes of non-overlapping isolated faunas without clear seriation
information. A preponderance of seashells. Unknown effects of reworking.
Fossil graveyards. Myriads of dead organisms buried in water-laid rock strata
all over the world. Sadler suggests a solution in his ending sentence; biostratigraphers
might have better success by looking outside the box and adapting the techniques of other
disciplines. Most likely he did not intend to consider some disciplines that the ruling
Darwin Party has placed off limits. Too bad; what if thats where the true solution is
waiting to be found?
Next headline on:
Geology
Fossils
Dating Methods
Evolution of Jaws: A Hox on Storytelling 05/19/2004
Lampreys are jawless fish, unlike Jaws and his kin. M.J. Cohn found that Hox genes are expressed
in a lamprey in the first pharangeal arch. Noting that fish with jaws do not express Hox
genes in the first pharangeal arch [PA1], from which the jaws develop, Cohn hypothesized
that jaw evolution proceeded with a retreat of Hox expression from this arch.
But an international team publishing in Nature1 found another lamprey with no Hox expression in the
arch. They conclude, Cohns finding is not a general feature
within the lamprey group and is therefore unlikely to be related to jawlessness.
Instead, the lack of Hox expression in the lamprey PA1 may reflect the fact that in both lampreys and gnathostomes [jawed creatures] the rostral-most pharyngeal arch forms highly specialized structures that are morphologically distinct from those of more posterior arches (emphasis added). The
presence or absence of Hox expression in PA1 is therefore not functionally relevant to jawlessness,
they say.
1Takio et al., Evolutionary biology: Lamprey Hox genes and the evolution of jaws,
Nature (20 May 2004); doi:10.1038/nature02616.
Let us understand that evolution cannot advance by losses. A lamprey is
not going to get a jaw by turning off genes. Is Cohn asking us to believe
that there were jaw-making genes that the lamprey decided to turn off?
Clearly not. But to evolve by losses is like the merchant who lost money
on every sale but thought he could make it up in volume. A jaw is a
highly specialized structure made of many parts that must fit
together. Cohns hypothesis was just a tall tale based on circumstantial
evidence and belief in evolution. At least he was ambidextrous; he could
wave his hands and whistle in the dark at the same time.
Its getting monotonous to report evolutionary just-so stories
that have proven false. Can we get some positive evidence for a change,
instead of jawboning?
Next headline on:
Fish and Marine Life
Darwinism and Evolutionary Theory
Selfish Genes Turn Cooperative 05/19/2004
Nature1 has reported evidence that transposons help to
regulate gene expression. Transposons are genetic material that insert
themselves into the DNA of a host, and were thought to represent selfish
genes that only had their own propagation in mind, without regard
for the consequences. Some new studies on the L1 retrotransposon,
which makes up about 17% of the human genome (mainly within non-coding introns),
have shown, however, that they may do us some good.
The studies
suggest that the insertion of L1 elements into introns can also diminish
cellular gene expression in a graded fashion, the News and Views
piece says. In the words of Han, Szak and
Boeke, such L1 insertions provide a molecular rheostat with which to
govern gene activity — and their bioinformatics analysis establishes that the
mechanism is widely used. (For more on the molecular rheostat
concept, see 01/10/2003 headline).
If the transposons were truly selfish, responding individually
to darwinian natural selection without regard for the consequences,
it has long been a mystery what keeps them at bay.
If the new studies unveil a major control mechanism, part of the
solution may be to recognize synergy instead of selfishness.
1Frederic Bushman, Gene regulation: Selfish elements make a mark,
Nature 429, 253 - 255 (20 May 2004); doi:10.1038/429253b.
How can a gene be selfish? A gene
has no concept of self. It couldnt care if it propagated itself
or not. The myth of selfish genes is a misleading
anthropomorphism.
Only people are selfish.
On the other hand, genes are not altruistic, either.
The metaphors of rheostats, regulators and molecular machines imply
intelligent design and programming. That is not an anthropomorphism,
because machines are not personal. Consequently,
one doesnt have to demonstrate anything about the designer to see
the evidence that a product was designed. But observing that the design
works so well (i.e., your senses are working as you read this thanks to the regulation
provided by transposons), it wouldnt hurt to ponder the subject a little.
Next headline on:
Genes and DNA
Giardia Spoils Evolutionists Soup 05/19/2004
In current evolutionary thinking, Giardia (the backpackers bane,
a water-borne intestinal parasite that causes cramps and diarrhea) is an
oldie. Once long ago, early cells supposedly engulfed bacteria that became
specialized into modern mitochondria. Until a few months ago, Giardia
was thought to represent a throwback to the time before this union,
reports Nature,1 because the organism apparently did not contain
mitochondria. Recently, however, scientists had found the genes that code
for mitochondrial proteins. But the real bombshell came last November,
Jonathan Knight reports, when a team found the proteins clustered in little
sacs they dubbed mitosomes, or mitochondria-like bodies (see
11/12/2003 headline). Some scientists
want more evidence before giving up their evolutionary trees.
This attitude frustrates people such as William Martin, who studies molecular evolution at Heinrich Heine University in Düsseldorf, Germany. He is convinced that the best and simplest explanation for the data is that Giardia once had mitochondria. Some people, he argues, refuse to accept this because they have spent too many years working on the opposite assumption. They dont want it to have mitochondria because it spoils their soup, he says. This thinking is deeply ingrained.
The thinking has its roots in the concept of the Archezoa, Martin argues, the group that was conceived to bring together a range of single-celled eukaryotes thought to lack mitochondria. Giardia was the granddaddy, having branched off on its own before any other eukaryote, according to evolutionary trees built using sequences of RNA from ribosomes, the organelles in which proteins are made....
But one by one, the Archezoa all proved to have either a set of mitochondrial genes in their nuclei, \
or relics of mitochondria such as mitosomes or hydrogenosomes. (Emphasis added.)
Nature has a gut feeling that
Giardias status as the earliest branching eukaryote has
also been questioned by these discoveries. Maybe some day, someone will discover
a new member of the Archezoa, sans mitochondria or mitosomes, lurking in
the oxygen-starved muck at the bottom of a lake. But even then,
Some recent evolutionary trees that take into account the variable rates
at which different DNA bases mutate paint a much muddier picture of the
early branches.
1Jonathan Knight, Giardia: Not so special, after all?
Nature 429, 236 - 237 (20 May 2004); doi:10.1038/429236a.
Need we remind anyone that a mitochondrion is
among the most complex organelles in a cell, home of the elaborate molecular
machine named ATP synthase? (See 02/13/2004
and 09/18/2003 headlines). So here again
is a familiar pattern: the earliest, most primitive organisms
are already busily using advanced technology. Darwinists can point to
no precursors. The ones they surmised were precursors turned out not to
be; they are either just as complex, or parasites that degenerated from
earlier complex organisms. Another familiar pattern: evolutionists dont
want to admit it. This thinking is deeply ingrained.
A group of evolutionary biologists was standing by the rail on a Darwin Party cruise
aboard the HMS Beagle 3. They were all moaning
from having eaten spoiled soup, made with bad leaves from the wrong tree.
Captain FitzBehe walked up to a green-faced patron who just fed the fish. Whats the matter,
Chuck? he asked with a slap on the shoulder. Weak stomach?
No, captain, the evolutionist struggled to reply.
Im throwing it farther than anybody else.
Next he |