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| Stasis
& Devolution
News & Views January 2009 The example of salamanders As the new archeological evidence shows, 200 salamander fossils found in Despite
its
Bathonian [161 million year] age, the new
cryptobranchid shows extraordinary
morphological similarity to its living relatives.
This
similarity underscores the stasis within salamander
anatomical
evolutio These,
about 7 inches long samples have even their soft tissue impressions
very well
preserved although, for 100 million years older than the previously
known
oldest salamander fossils. The
example horseshoe crabs * “We wouldn’t
necessarily have expected
horseshoe crabs to look very much like the modern
ones,
but that’s exactly
what they look like,” [David] Rudkin [Royal Ontario Museum]
said. * “This body plan that they’ve invented, they’ve stayed with it for almost a half a billion years. It’s a good plan,” Rudkin told LiveScience. “They’ve survived almost unchanged up until the present day, whereas lots of other animals haven’t.” * And whereas major extinction events have wiped even the mightiest, non-avian [sic] dinosaurs from our planet, this primitive-looking organism has come out unscathed. * “The horseshoe crab, the lowly little animal that crawls out of the sea every once in a while to mate, it’s survived for at least 445 million years in more or less the same form,” Rudkin said. 2. Gene
Hunt, “The
relative importance of directional change, random walks, and stasis in
the
evolution of fossil lineages,” Proceedings
of
the National Academy of Sciences USA, published
online before print
November 14, 2007, 10.1073/pnas.0704088104.
3. Vertebrate-type intron-rich genes in the marine annelid Platynereis dumerilii F. Raible, K. Tessmar-Raible, K. Osoegawa, P. Wincker, C. Jubin, G. Balavoine, D. Ferrier, V. Benes, P. de Jong, J. Weissenbach, P. Bork and D. Arendt. 4. intron - Part of a gene whose sequence is transcribed but not present in a mature mRNA after splicing. Human-Ape
Difference Tripled
From
Science magazine:
“For almost 30 years, researchers had assumed that the DNA As
reported in the Proceedings
of the National Academy of Sciences,
“One interesting observation is that the sequence divergence between
chimp and
human is quite large, in excess of 20% for a few regions.
Some of the
larger gaps are broken by regions within
them that align with appropriate segments
of the other species’ DNA sequence but only have distant
similarity. These
observations suggest that complex processes, presumably involving
repeated
sequences and possible conversion events, may occur that will require
detailed
study to understand.” The
problem with the old
studies is that the methods did not recognize differences due to events
of
insertion and deletion that result in parts of the DNA being absent
from the
strands of one or the other species. These are different from the
aforementioned
substitutions. Such differences, called "indels," are readily
recognized by comparing sequences, if one looks beyond the missing
regions for
the next regions that do match. The
above research study
of Roy Britten of Caltech,
carried out in 2002,
was confirmed by Hahn and co-workers (2006) who reported that
human and chimpanzee gene copy numbers differ by a whopping 6.4%. They
concluded that "gene duplication and loss may have played a greater
role
than nucleotide substitution in the evolution of uniquely human
phenotypes and
certainly a greater role than has been widely appreciated." The
researchers paid
special attention to gene number changes between humans and chimps.
Using a
statistical method they devised, the scientists inferred that humans
have gained
689 genes (through the duplication of existing genes) and lost 86 genes
since
diverging from their most recent common ancestor with chimps. Including
the 729
genes chimps appear to have lost since their divergence, the total gene
differences between humans and chimps was estimated to be about 6
percent. So,
if human and chimp
had a common ancestor 6 million years ago, then the human genome would
have had
to independently fix in about 90 million changes… (assuming the other
90
million differences come from the common ancestor to chimp and no
percentage of
identical changes). 90Mbp/6my
= 15 fixed
base pairs PER YEAR in the population! Conclusively,
thorough
analysis of the chimpanzee genome indicates that humans and chimps
display no
more than a 93% genetic similarity when all the genetic differences
(substitutions, indels, Alu sequences, segmental duplications,
chromosomal
rearrangements, etc.) are taken into consideration. All this increases
the time
of evolution from the common ancestor, who must have had even less
genetic
similarity with humans and chimps. This “extended time”,
however, is not a very good argument when all the different
constraints of genetic evolution are considered. Thus all the genetic
differences and similarities point not to the common ancestry of humans
and
chimps but to
their having a common pattern. For further
reading about constraints of genetic evolution, please see the book
“The
Mystery of Genome” by John Sanford. Additionally,
after the
sequencing of genomes of many species, unique microRNA genes were
discovered in
both the chimps and humans, and from the 244 discovered microRNA[1]
genes, 10%
are not found in any other organisms except humans. As the micro-RNA
genes play
a key role in regulating the activity of genes that specify proteins,
this
greatly undermines one of the best arguments of evolutionary
theory (the
shaping of genomes of organisms,
like those of the humans and chimps, by random
biochemical events). 1.
J. Graham Ruby et al., "Large-Scale
Sequencing Reveals 21U-RNAs and
Additional MicroRNAs and Endogenous siRNAs in C. elegans,"
Classic
experiments give new
insight on life's
origin
The
original
experiments, performed by Stanley Miller at the University of Chicago
in 1953
and 1954 (Miller died in 2007), were the first to demonstrate that the
basic
molecules of life could be synthesized by subjecting hydrogen-rich
gases (such
as methane and ammonia) to an electric spark, simulating lightning in
the
primordial atmosphere. Scientists no longer think that the primordial
atmosphere as a whole had the make-up assumed by Miller's experiments,
but the
clouds of gases emitted during volcanic eruptions do have a
hydrogen-rich
composition. Volcanic eruptions may have been very common during the
planet's
hot, early stages. "It turns out that some of the experiments Miller performed
simulated
the steam from volcanic eruptions, in addition to the more famous
experiments
that simulated a hydrogen-rich atmosphere," says H. James Cleaves, of
the
Carnegie Institution's Geophysical Laboratory, one of the paper's
co-authors
and Miller's last graduate student. "And when we analyzed samples left
over from these volcanic experiments, they contained the most varied
mixture of
compounds." Cleaves points out that lighting is very commonly associated with volcanic clouds, and could have been an abundant source of energy to convert simple compounds into organic molecules. Comments:
The proposal that
the prebiotic material
originated not from
chemical reactions within the atmosphere but from early volcanic
eruptions is
not new. Importanly, according to John W. Delano et.al.
the [MM1]emissions
of the volcanoes 3.9 billion years ago and those happening nowadays
were
exactly alike, namely consisting mainly of water, carbon dioxide, and
sulfur
oxide. This means two things: 1. in Muller’s experiment the conditions
were not
pertinent to the volcanic environment of the early earth, and
2. just
as
nowadays it is not likely that pre-biotic materials are generated
in volcanic eruptions, similarly, it was not
likely at the time of the early earth. Accepting
directionless chance to be the origin of life obviously leaves
many things unexplained, like, first
of all, the generation of amino acids, which are the
building blocks of life, and moreover, the appearance of meaningful genetic
code for building proteins. Bat Evolution
In the article of Scientific American, "Taking Wing: Uncovering the Evolutionary Origins of Bats" written by Nancy B. Simmon, the concluding paragraph runs as follows: Despite many new discoveries about the rise of bats, mysteries remain. Bat ancestors must have existed prior to the Eocene, but we have no fossil record of them. Likewise, the identity of the closest relatives of bats is still unknown. Investigators are also eager to learn when the bat lineage first became distinct from that of the other laurasiatheres and how much of early bat evolution and diversification took place in the northern continents versus the southern continents. We therefore need fossils that lie even closer to the beginning of bats than Onychonycteris does. With luck, paleontologists will find such specimens, and they will help solve these and other riddles about the origins of these fascinating animals.[1] How much fossil records are missing to proof the evolution of bats, Simons explained in her article to Nature in 2005. "Our molecular dates suggest that there are large gaps in the fossil record for most bat lineages," On average, the fossil record underestimates the origin of 58 bat lineages by 73%. The four major microbat lineages are missing on average 56 to 86% of fossil history, with the Gondwanan clade (noctilionoids) missing the most. Megabat lineages are missing a sum total of 98% of their fossil history (table S5). The terminal and internal branches are missing on average 58 and 88% of fossil history, respectively. With well over half of the Cenozoic history missing for microbat lineages and nearly all of the fossil history missing for megabat lineages, it is not surprising that Paleocene bat ancestors having transitional morphological adaptations for flight and echo-location have never been discovered. [2] Although the evolution hypothesis of bats supposedly goes back to Onychonycteris, in her new article Simmons admitted that "their ascension was hardly a foregone conclusion: no other mammal has conquered the air." The "many new discoveries" will have to fill up the huge gaps and dissipate the mystery of bats evolution. However, the echolocation found in 85% of these "superb fliers" puts additional anatomical constraints on the skull, mouth, ears and throat. The ability for powered flight depends on many suitably
developed organs,
and "the most primitive bat ever discovered" is the Onychonycteris
finneyi in Previous studies already reveal some amazing sonar ability of bats. For example, the bat Eptesicus fuscus can process two million overlapping echoes a second and perceive these echoes with a resolution of only 0.3 millimeters (1/80th of an inch).[3] The echolocation of fishing bats is able to detect a minnow's fin, as fine as a human hair, extending only 2 mm above the water surface.[4] So, earlier fossils did not help in filling the gap and this means there is space for imagination. Continuing her presentation, Simmons described the diversity of living bats. According to genetic analysis, bats are not at all related to other gliding mammals. The closest ancestors, "an ancient lineage known as Laurasiatheria" consists of "such diverse beasts as carnivores, hoofed mammals, whales, scaly anteaters, shrews, hedgehogs and moles," but none of them are fliers. Simons comments: Primitive laurasiatheres,
however, were probably mouse- or squirrel-size
creatures that walked
on all fours and ate insects. Laurasiatheres are
thought to have
evolved on the ancient supercontinent of Laurasia, which
comprised what is
now Her answer to this last, important question was 'bone morphogenetic proteins (BMPs). It is therefore possible that a small change in the genes regulating BMPs underlies both the developmental and evolutionary elongation of bat wing digits. If so, that might explain the absence in the fossil record of creatures intermediate between short-fingered, nonflying mammals and long-fingered bats such as Onychonycteris and Icaronycteris: the evolutionary shift may have been very rapid, and few or no transitional forms may have existed. Simmons’ arguments come down to this: If one imagines gradual changes in gene expression of BMPs, then one can imagine the transitional forms of bats too. Thus, evolution is proven. To Some interesting facts about bats *
Contrary to mythology, bats do
not get entangled
in human hair, and are not blind. References* With more than one thousand species, bats make up almost a quarter of all known mammal species. * Many bat species are in alarming decline and/or threatened with extinction. * Many plants are dependent on bats for pollination; other plants benefit from seed dispersal by bats.[a] * The smallest mammal in the world is * The giant flying fox of * The echolocation of fishing bats is able to detect a minnow’s fin, as fine as a human hair, extending only 2 mm above the water surface. This is because bats can distinguish ultrasound echoes very close together. Man-made sonar can distinguish echoes 12 millionths of a second apart, although with ‘a lot of work this can be cut to 6 millionths to 8 millionths of a second.’[c] But bats ‘relatively easily’ distinguish ultrasound echoes only 2 to 3 millionths of a second apart according to researcher James Simmons of Brown University.[c] This means they can distinguish objects ‘just 3/10ths of a millimetre apart—about the width of a pen line on paper.’[c] * The free-tailed bats of * One small brown bat can catch 600 mosquitoes in an hour. The 20 million bats in the Bracken Cave of Texas eat 250 tons of insects each night. As bat numbers diminish, the use of chemical insecticides increases. 1. Taking
Wing: Uncovering the
Evolutionary Origins of Bats, By Nancy B. Simmons, http://tinyurl.com/75gqku
2. Nancy B. Simmons, “An Eocene Big Bang for Bats,” Science , Vol 307, Issue 5709, 527-528 , 3. Philip Ball, “Astounding Bat Mobility,” Nature, 4. Simmons was cited in the appropriately titled article: Bats put technology to shame, Cincinnati Enquirer, a. The New Encyclopędia Britannica, (15th Edition) 23:374, 1992. b. <www.batcon.org>, also many of the unreferenced facts herein are supported by this site, c. Simmons was cited in the appropriately titled article: Bats put technology to shame, Cincinnati Enquirer, Circadian Clock The biochemical motors and machines found in the cell’s interior reveal a diversity of form and function that mirrors the diversity of designs produced by human engineers, and thus they pose a serious challenge to the random mutation and selection concept of evolution theory. It is an easy to understand argument that the machine will work as a complete whole only when all the necessary components are assembled, but when defective or missing some parts, it will be non-functional or useless. One of the most compelling argument for design is found in the example of cyanobacteria’s biomachines with amazingly complex and precise timekeeping devices. A
physiological black box is to a biologist what an ornately decorated
package is
to a small child: a mysterious treasure that promises delightful toys
within.
With fitting elan, a small community of scientists has ripped open the
packaging of the cyanobacterial circadian clock, compiled the parts
list,
examined the gears, and begun to piece together the mechanism. Over the past 2 years, the
3D molecular
structures have been solved for the core components of the
cyanobacterial
circadian clock: KaiA, KaiB, and KaiC.
In a surprisingly literal analogy to mechanical
timepieces, the protein
that seems to be at the heart of the clock mechanism, KaiC, forms a
hexameric
ring that even looks like a cog: the escape wheel, perhaps. Previous work has shown
that KaiC has an
autophosphorylation activity, and that the presence of KaiA and KaiB
modulates
the extent to which KaiC is phosphorylated. In this issue of PNAS,
Nishiwaki et
al. biochemically identify two amino acid residues on KaiC to which
phosphoryl
groups covalently attach, and show the necessity in vivo of a
phosphorylation-competent residue at these positions.
By searching the crystal structure for
evidence of phosphorylated sites, Xu et al. pinpoint a third residue
that may
“borrow” the phosphoryl group dynamically.
Together, their work contributes richly to our
understanding of what
makes the gears mesh and turn to crank out a 24-h timing circuit....
Because each of these components (at minimum) is a dimer [composite of two molecular chains], KaiC is known to be a hexamer [composite of six chains], and other proteins may be present as well, the cyanobacterial clock can be thought of as an organelle unto itself: a “periodosome” that assembles and disassembles during the course of a day, defining the circadian period.[1] “Periodosome” means “time-keeping body” – i.e., clock. In the article by Johnson, Egli and Stewart published recently in the Science magazine there is a similar, somewhat more detailed description of cyanobacteria’s circadian clock: An
endogenous circadian system in cyanobacteria exerts pervasive control
over
cellular processes, including global gene expression.
Indeed, the entire chromosome undergoes daily
cycles of topological changes and compaction.
The biochemical machinery underlying a circadian
oscillator can be
reconstituted in vitro with just three cyanobacterial proteins, KaiA,
KaiB, and
KaiC. These
proteins interact to promote
conformational changes and phosphorylation events that determine the
phase of
the in vitro oscillation. The
high-resolution structures of these proteins suggest a ratcheting
mechanism by
which the KaiABC oscillator ticks unidirectionally.
This posttranslational oscillator may
interact with transcriptional and translational feedback loops to
generate the
emergent circadian behavior in vivo.
The
conjunction of structural, biophysical, and biochemical approaches to
this
system reveals molecular mechanisms of biological timekeeping.[2] According to Johnson et al each cell has 10,000 KaiC proteins. Each of the KaiC protein is a barrel mechanism with two donut-shaped rings, each made of six toothed parts that make it look like a gear wheel. The clock runs on ATP energy[3] pellets. It accumulates hydrogen bonds through phosphorylation events that force it to “tick” like a ratchet in one direction. It keeps an accurate 24-hour cycle, releasing its energy for the next round in conjunction with feedback loops from the nucleus and cytoplasm. As obvious from the complexity described above, it is very reasonable to suggest that even one simplest, efficient molecular machine for example the KaiC protein could not appear without being designed and what to say about 10,000 of them that harmoniously “tick” together i.e the 10,000 proteins in each particular cell. 1. Susan
S. Golden, “Meshing the gears of the cyanobacterial circadian clock,“
Proceedings of the National Academy of Sciences USA,
10.1073/pnas.0405623101.
2. 1. Johnson, Egli and Stewart, “Structural Insights into a Circadian Oscillator,” Science, 31 October 2008: Vol. 322. no. 5902, pp. 697-701, DOI: 10.1126/science.1150451. 3. ATP or adenosine triphosphate is a high energy phosphate compound found in the body; one of the major forms of energy available for immediate use in the body. In his recent article
to Nature magazine Steve Jones[1] wrote: "Many biologists, by contrast,
insist that what look like palaeontological leaps can be explained by
simple Darwinism." This statement refers to the punctuated equilibrium
theory of Jaya Gould that he came up due to the large gaps in the
fossil records. His view was that after long periods of stasis a there
are periods of quick evolutionary developments. Further, Jones
explained the reason for Gould's theory saying: "To them, an
instant in geology may represent almost an infinity in biology, leaving
plenty of time for evolution by natural selection to do its normal
job." One can just wonder, was this theory born out of luck of evidence
for evolution and a great creativity of the mind. And additionally,
just as at the time of Gould, nowadays too, there are still many gaps
in the fossil records. 1. That in the past there were cicada predators and parasites that became extinct though a lack of the insects. "is a bold assumption," says Markus. An ancient wasp is one hypothetical parasite . . . . But the idea is highly speculative, as fossil records of the wasp have never been found.[2] 2. In 1999, writing in Nature, Oxford zoologist Mark Pagel stated while reviewing a book by Niles Eldredge:Palaeobiologists flocked to these scientific visions of a world in a constant state of flux and admixture. But instead of finding the slow, smooth and progressive changes Lyell and Darwin had expected, they saw in the fossil records rapid bursts of change, new species appearing seemingly out of nowhere and then remaining unchanged for millions of years-patterns hauntingly reminiscent of creation.[3] 3. Finally, in 2001, evolutionary biologist Ernst Mayr wrote: "Wherever we look at the living biota … discontinuities are overwhelmingly frequent…The discontinuities are even more striking in the fossil record. New species usually appear in the fossil record suddenly, not connected with their ancestors by a series of intermediates."[4] References 1. Steve Jones, "A
wonderful life by leaps and bounds," Nature 456, 873-874 (18 December
2008) | doi:10.1038/456873a; Published online 17 December 2008.
Transcendental
Archeology2. Cicadas appear in their prime, Irregular emergence may foil insects' predators, by Erica Klarreich, Published online 23 July 2001 | Nature | doi:10.1038/news010726-3 3. Pagel M., "Happy accidents?," Nature, Vol 397, pg. 665 (February 25, 1999). 4. Mayr, E., What is Evolution, pg. 189 (2001). By Bhama Devi
The conch and the Sudarshana Chakra are unmistakable. Although the
figures do
not match popular images of Kirshna sporting a peacock feather,
archaeologists
are convinced that the coins are of |