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	<title>Creation Science Association of Alberta &#187; Dialogue 2005 #3</title>
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	<link>http://www.create.ab.ca</link>
	<description>An association of Christians from all over Alberta, active in the province for over thirty years.</description>
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		<title>Another Remarkable Molecular Machine</title>
		<link>http://www.create.ab.ca/another-remarkable-molecular-machine/</link>
		<comments>http://www.create.ab.ca/another-remarkable-molecular-machine/#comments</comments>
		<pubDate>Sun, 02 Oct 2005 03:54:51 +0000</pubDate>
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				<category><![CDATA[Dialogue Magazine]]></category>
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		<guid isPermaLink="false">http://www.create.ab.ca/?p=188</guid>
		<description><![CDATA[Scientists are continually discovering remarkable molecular machines which work inside each living cell. One such machine involves proofreading. Anytime you or I copy a document, it is always a good idea to proofread the script. Since each cell copies or duplicates its own genetic code or DNA before cell division, the cell would be well [...]]]></description>
			<content:encoded><![CDATA[<p>Scientists are continually discovering remarkable molecular machines which work inside each living cell. One such machine involves proofreading. Anytime you or I copy a document, it is always a good idea to proofread the script. Since each cell copies or duplicates its own genetic code or DNA before cell division, the cell would be well advised to check the new strands to make sure there are no copying errors.<span id="more-188"></span></p>
<p>Not surprisingly, such repair enzymes or proteins actually exist. Many of these work by scanning long strands of DNA for one kind of error only. Since actual errors are very rare indeed, each protein must cruise along the DNA quickly, stopping only when the right kind of error is detected.</p>
<p>One such protein in human cells has been studied in detail. The enzyme 8-oxoguanine glycosylase or hOGG1 for short, seeks a damaged form of guanine (one of four nitrogen bases which form the DNA code). Guanine, you may have heard, always pairs with the nitrogen base cytosine. This is the base pair that hOGG1 specifically seeks. When the guanine is normal, hOGG1 continues merrily along until a guanine with an extra oxygen is detected. This slightly larger molecule is called 8-oxoguanine (oxoG) and it is bad news.</p>
<p>The question now is how does the hOGG1 enzyme detect a difference between good and bad guanine, and what does it do with the bad product? As the enzyme moves along the two complimentary DNA strands, it hesitates when it encounters a CG pair. The enzyme then briefly breaks the CG bond, and flips the guanine outward toward a special pocket on the hOGG1 molecule. If the nitrogen base is indeed guanine, the protein continues on its merry way and the guanine flips back in to join again with cytosine.</p>
<p>If however the guanine has an extra oxygen, the nitrogen base fits differently into that first enzyme pocket. The hOGG1 molecule then flips the oxoG back into a deeper pocket which then snips the nitrogen base out of the DNA chain. Soon another protein will come along to insert a normal guanine into the chain.</p>
<p>An extra oxygen may come to be attached to a nitrogen base as a result of free oxygen radicals (we all know they are bad) or as a result of ionizing radiation (worse still). The problem is that when DNA is being duplicated prior to cell division, the duplicating enzyme reads oxoG as a thymine (T), quite a different nitrogen base. Thymine always pairs with another nitrogen base, adenine (A). Thus as a result of an extra oxygen, one could end up with an AT pair rather than a CG pair. Such a change may not matter at all, or it could be disastrous, depending where it is along the DNA molecule. The single base error may cause a cell to insert the wrong amino acid into a protein (or it may not), depending on the position in the gene.</p>
<p>Some amino acid substitutions may not matter at all, but others may be significant. The sickle cell mutation, for example, results from a single nitrogen base pair substitution. This mutation results in terribly malformed red blood cells.</p>
<p>It is the shape of the hOGG1 protein which confers its double bene- fi ts of speed and accuracy. Apparently a mere 50,000 hOGG1 molecules are enough to review the six billion base pairs of the DNA content of a normal human cell. This is a ratio of one hOGG1 protein per 120,000 nitrogen bases. Happy scanning, hOGG1. It is obviously important that proofreading enzymes like hOGG1 carry out their very specific proofreading tasks. We should not be surprised by such impressive molecular machines, of course. We already know that all living creatures are fearfully and wonderfully made. Still it is good to remind ourselves of that fact. (see <em>Nature</em> 434 March 31/05 pp 569- 570 and 612-618)</p>
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		<title>Mental Gymnastics</title>
		<link>http://www.create.ab.ca/mental-gymnastics/</link>
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		<pubDate>Sun, 02 Oct 2005 02:55:52 +0000</pubDate>
		<dc:creator>admin</dc:creator>
				<category><![CDATA[Biology]]></category>
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		<guid isPermaLink="false">http://www.create.ab.ca/?p=47</guid>
		<description><![CDATA[There is nothing like problem solving to keep one mentally alert. Some people might say that the study of nature is a form of problem solving and so it is. Collecting information is only half the battle. The real challenge is to try to explain the data.
The vast diversity of living organisms on earth poses [...]]]></description>
			<content:encoded><![CDATA[<p>There is nothing like problem solving to keep one mentally alert. Some people might say that the study of nature is a form of problem solving and so it is. Collecting information is only half the battle. The real challenge is to try to explain the data.<span id="more-47"></span></p>
<p>The vast diversity of living organisms on earth poses a great challenge to all biologists. Where did all that variety come from? There are basically two competing explanations: either separate creations, or evolution. A group of scientists met in Moscow, Idaho last June to compare notes on their research projects. The biologists at the conference approach their discipline bearing in mind that God created organisms according to their kinds (specific body plans) during the creation week. The problem however is that we do not know how large or how small the created kinds are.</p>
<p>Although we sometimes hear the term &#8220;fixity of species&#8221;, no biologist would defend this idea since a precise definition of species is not available. This means that the smallest group which might constitute a created kind would be at the genus level. With the genus <em>Rattus</em> for example, various rat species would all be within the rat kind. The idea is that some time after the creation, individual species have developed from a generalized rat body plan.</p>
<p>Many biologists today however suspect that the created kind may be larger still, at the family level. Rats, for example, along with mice, voles, hamsters, lemmings, muskrats and gerbils are categorized into a family of organisms with a roughly similar body plan and behaviours.</p>
<p>The next more inclusive clustering of organisms is at the order level. The rodent order includes tremendous variation on the rodent theme such as porcupines, squirrels, prairie dogs and marmots, beaver as well as the rats, mice and voles. Might all these creatures be descendants of one created kind? In this case a dramatic burst of change would be needed at some stage since the creation.</p>
<p>Obviously such questions could degenerate into useless speculation. However some biologists in Europe and in the United States have set out to test these ideas. Firstly it was necessary to establish some criteria to try to recognize members of a created kind. The term baramin was established from the ancient Hebrew word <em>bara</em> meaning &#8220;created&#8221; and <em>min</em> meaning &#8220;kind&#8221;. Initially hybridizing experiments were carried out on the premise that only members of a created kind would be able to produce offspring together. Eventually, since not all organisms are capable of sexual reproduction, the definition was broadened to include statistical analysis of many characteristics of organisms.</p>
<p>When a study suggests that a group of organisms exhibits basic features in common, this is said to be evidence of continuity. In this case all these organisms are provisionally assumed to represent the same monobaramin. If a conspicuous difference or discontinuity separates two groups, then each is placed in separate apobaramins or separate kinds. A holobaramin is defined both in terms of internal consistency and external gaps between it and other clusters of organisms. Thus a holobaramin is perhaps a promising approximation of a created kind.</p>
<p>Obviously with computer time and a data matrix the researcher is in business. Further good news is that most scientists do not need to engage in the tedious business of collecting information for a character matrix. Plenty of such data bases, representing a wide variety of organisms have already been published. All the researcher has to do is apply the equation of choice to the data, and see what kind of pattern is revealed. In this context, any topic is available for reconsideration, as, for example, the fabled organisms of the Galapagos islands.</p>
<p>The Galapagos archipelago is a collection of 29 or so volcanic islands of various sizes and elevations. They range in size from a few square metres up to 4700 square kilometers for Isabela. Thirteen of the islands are more than 10 square kilometres in area. The largest ones exhibit the highest elevations, up to 1700 m on Isabela. For most of the islands, the distance to the nearest island is less than 2 km. In addition, almost all of them lie less than 100 km away from the central island of Santa Cruz.</p>
<p>The biological communities on the islands occur in zones matching elevation. While the largest islands support the highest number of plant and animal species, it nevertheless is the case that the smaller islands exhibit a much higher proportion of endemic (unique) species. While large Isabela has 347 species of which 89 are endemics, tiny Genovesa, with only 40 species nevertheless has 19 endemics. Most of the endemics are found in the arid and transition zones rather than in the tropical highlands.</p>
<p>The question which all biologists seek to answer is, where did the endemic species come from? In view of the fact that these islands probably arose soon after the flood, the founding colonies of organisms probably arrived on rafts of vegetation from South America. Even today, much of the biological community is the same as on the mainland but with many fewer species.</p>
<p>The endemics on the other hand are similar, but not identical, to mainland species. The case of the three Galapagos mockingbird species particularly intrigued Darwin. Each species is endemic to a single island. Where did they come from? One possibility is that a single population came to the archipelago. Later, on separate islands, the populations became adapted to different environments. This process is called natural selection.</p>
<p>Other explanations are however possible. Three different populations may have invaded separate islands. Similar populations on the mainland perhaps later died out leaving those on the islands as the only surviving representatives. Alternatively a sizeable group arrived together but the representatives which migrated to separate islands differed slightly in their genetic characteristics. Over time further loss of some variability in the three populations caused them to become yet more different. This process is called genetic drift. Another possibility is &#8220;mediated design.&#8221; According to this idea, proposed by Dr. Todd Wood and colleagues, the arriving population had special genetic characteristics preprogrammed to be expressed after the flood as required for survival.</p>
<p>With all these possibilities in mind, Dr. Wood, a biologist at Bryan College in Tennessee, set out to study certain Galapagos endemics. He was not averse to the idea that unique species (endemics) developed on the Galapagos archipelago. He applied his statistical analysis to the taxonomic categories to see if the Galapagos organisms could be grouped within larger baramins or created kinds. He then looked at the endemics and their distributions. Would his statistical tools shed any light on the situation?</p>
<p>The simplest case is that of the Galapagos hawk. There is one endemic species which lives on nine islands. Both in appearance and in similarity of DNA sequences, this bird resembles Swainson&#8217;s hawk which migrates between the Great Plains of North America and northeastern Argentina. The Galapagos hawk, on the other hand, is extremely sedentary. It shows no inclination to fly over water, even to islands which are close by. So did a large population invade several islands and then later lose its wanderlust? It seems probable.</p>
<p>The famous Galapagos tortoises are a more difficult issue. All island specimens are classified in the same species. Populations occur on eleven islands and each can be distinguished on the basis of appearance and behaviour. The tortoises definitely prefer to breed with individuals from their own island. Thus many people consider each island population to be a separate subspecies.</p>
<p>The most conspicuous difference is in the shape of the shell (carapace). Some island populations have a domed carapace (like similar species in South America) while other local populations have a saddleback shape. Neither shape appears to confer an advantage over the other in any of these environments As far as the origin of the archipelago tortoises is concerned, whether the population arriving was large bodied or small, domed or saddlebacked, this study provides few answers.</p>
<p>Among bird groups, Dr. Wood considered the gannets (genus <em>Morus</em>) and boobies (genus <em>Sula</em>) of which there are three booby species present. He ran his baraminic distance analysis on a data base involving these two genera. The study revealed a clear discontinuity between the two genera. This he elected to ignore on the basis that such small created kinds would be &#8220;unprecedented in vertebrate baraminology.&#8221;</p>
<p>Such a result obviously will continue to be unprecedented if no one takes the results seriously. In any case these statistical studies are mere tools, not definitive indicators of relationship.</p>
<p>No data base exists on the archipelago&#8217;s most famous inhabitants, the thirteen endemic finch species. Nevertheless Dr. Wood concludes that the finches indeed diverged through natural selection into separate species. Each species presumably developed on a separate island and then flew to other islands. Today as many as ten species live together on the islands and no island has only one species. Amusingly in the parallel case of the daisy tree (<em>Scalesia</em>), eleven endemic species which occupy separate islands, Dr. Wood concludes that they diverged probably from a mainland population through drift rather than natural selection.</p>
<p>It is apparent that there are few clear answers. Nevertheless the important thing is that these scientists are asking questions with a Christian focus. In time we will accumulate more insights. Obviously in all areas of biology there are plenty of research topics available for creation based biologists. Many bright young researchers, such as the ones we heard last June, are stepping up to meet this challenge.</p>
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		<title>Imagine That</title>
		<link>http://www.create.ab.ca/imagine-that/</link>
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		<pubDate>Sun, 02 Oct 2005 01:13:23 +0000</pubDate>
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				<category><![CDATA[Botany]]></category>
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		<category><![CDATA[Dialogue 2005 #3]]></category>

		<guid isPermaLink="false">http://www.create.ab.ca/?p=313</guid>
		<description><![CDATA[Have you ever discovered that something you thought quite ordinary (or even ugly), was actually a priceless antique? I remember harbouring such sentiments when I was a teenager. Since then, of course, I have learned better how to identify valuable items.
 In a different context however, recently I discovered that a common wildflower of the [...]]]></description>
			<content:encoded><![CDATA[<p>Have you ever discovered that something you thought quite ordinary (or even ugly), was actually a priceless antique? I remember harbouring such sentiments when I was a teenager. Since then, of course, I have learned better how to identify valuable items.<span id="more-313"></span></p>
<p><img src="http://www.create.ab.ca/wp-content/uploads/bunchberry.jpg" alt="" align="right" /> In a different context however, recently I discovered that a common wildflower of the boreal forest floor, a plant which we see everywhere in woodlands in spring, is actually an exceptionally remarkable biological specimen. I can&#8217;t wait for next spring to come so that I can look at bunchberry more closely.</p>
<p>The bunchberry plant is native to the North American boreal forest everywhere from Greenland to Newfoundland to Alaska. Each plant has a short stem, 7.5-15 cm (3-6 inches) tall, topped by a whorl of 4-7 shiny evergreen leaves. The flowers occur in a cluster above the point where the leaves are attached. However the blossoms are not exactly conspicuous. Greenish or white in colour, each flower is about 2 mm long. No wonder few people notice such flowers.</p>
<p>There is however something that people do notice. In the same way that tiny yellow Poinsettia flowers are surrounded by showy red bracts, so also the bunchberry flowers are surrounded by four showy white bracts. The bunchberry &#8220;flower&#8221; that most people identify, is actually a flower cluster with bracts. Later in the season the inflorescence develops bright red berries which are just as showy as the &#8220;flower&#8221; stage. The plant obviously takes its name from this cluster of fruit.</p>
<p>The plants are striking in their dense stands, but few people pause too long to examine them since there are usually other, less common blossoms to find and identify. Nevertheless, if we were to sit with a magnifying glass to observe these plants while the flowers are still in bud, we might discover that the flowers open in a spectacular fashion. Measurements on a miniature scale reveal that the bunchberry flower opens so quickly that it out-competes some organisms which are famous for their speed. Everybody knows about the snap of the venus flytrap (accomplished in 100 milliseconds or thousandths of a second or ms). Well bunchberry flowers open faster than the venus flytrap closes. Bunchberry flowers even manage to snap open faster than the famous stealth attacks of the mantis shrimp (complete in 2.7 ms).</p>
<p>One might suppose that such a fancy design feature provides the bunchberry flower with a special benefit and indeed it does. These flowers need to receive pollen from another plant in order to set seed. There are various ways to achieve this such as dispersal by wind or insects, but this plant uses another method for enhancing pollination as well. The buds open explosively. In the process, pollen is catapulted to comparatively impressive heights. At the exalted height of an inch (2.5 cm)!! above the blossoms, wind can better disperse the pollen to nearby flowers.</p>
<p>The process goes like this. First the petals, which are fused at their tips, pull apart and move out of the way. This process takes a mere 0.2 milliseconds. As they open outwards, the petals achieve a maximum speed of 6.7 metres per second with the impressive acceleration rate of 22,000 metres per second per second!</p>
<p>Once the petals are out of the way, bent filaments which have been holding the stamens in position against a central column (the style of the stigma), now begin to unfold. Once again we discover that living organisms employ designs that man has also developed, but the latter without the finesse exhibited in nature.</p>
<p>In the middle ages for example, armies used catapults to deliver rocks or fire to enemy castles. Specially effective catapults were called trebuchets (from an Old French word meaning &#8220;to overthrow&#8221;). These maximized the throwing distance by attaching the payload to a flexible strap. This device propelled the payload upward faster than an ordinary catapult could manage. Well guess what! Bunchberry stamens are attached to their filament by means of a thin flexible strap. The whole system constitutes a trebuchet.</p>
<p>Once the petals are out of the way, the bent filaments pull back in an arc. The stamen is then accelerated upward to a maximum vertical speed. Immediately, with a jerk, a cloud of pollen is released. During the first 0.3 milliseconds, the stamens accelerate at up to 24,000 metres per second per second. The duration of the process is so short however that the stamens reach only a maximum speed of 3.1 metres per second. The whole event does not last even a second, only about 0.5 milliseconds. Nevertheless, the result is that the pollen grains are launched to a height of 2.5 cm (more than 10 times the height of the blossom).</p>
<p>To put this in context, imagine that you could throw a ball upward to ten times your height in less than 0.5 thousandths of a second. Imagine the lucrative sports contracts you could command!</p>
<p>However, getting back to bunchberry, in quiet air over the forest floor, the pollen may reach a distance of 22 cm (100 times the flower&#8217;s diameter). With a breeze, flowers a metre away may receive a dusting of pollen.</p>
<p>It is evident that if these flowers were several cm in diameter, the impressive talents of this plant would be much more famous. When events happen in miniature however, we often miss the action. The source of the energy for the speed and force of the pollen catapult is stored mechanical energy in the form of water pressure in specific cells.</p>
<p>Biologists are only now beginning to investigate what allows a cell to release water pressure that quickly. Something impressive is happening, something that we do not yet understand. It is evident that even organisms which seem quite ordinary, may nevertheless exhibit remarkable talents. It is all part of the richness and variety of the creation. (see <em>Nature</em> 435 May 12/05 p. 164)</p>
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