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        <title>Custom Feed &#45; The BioLogos Forum</title>
    <link>http://biologos.org/resources/find/Blog/sort&#45;by&#45;Newest/sort&#45;by&#45;Newest/Evolution &#45; Evidence,Lives of Faith?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
    <description>This is a custom feed of BioLogos resources. Make a new feed at http://biologos.org/resources/find</description>
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    <dc:rights>Copyright 2013</dc:rights>
    <dc:date>2013-06-20T05:38:00-08:00</dc:date>    
    
    

            
            
        
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        <title>Series: Excerpts from “Evolving: Evangelicals Reflect on Evolution”</title>
        <link>http://biologos.org/blog/series/excerpts&#45;from&#45;evolving&#45;evangelicals&#45;reflect&#45;on&#45;evolution?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/excerpts&#45;from&#45;evolving&#45;evangelicals&#45;reflect&#45;on&#45;evolution?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>We need to hear stories from others who have wrestled with evolution and Christian faith.  What arguments made them change their views on science?  How did they hold fast to their relationship with God?  The essays in this series will eventually comprise a book, provisionally titled, “Evolving: Evangelicals Reflect on Evolution.”</description>
        <content:encoded><![CDATA[<p>The best place to begin the story of my exploration of evolution is with the Bible.</p>

<p>That may seem strange. Many people wouldn’t start with the Bible when talking about a scientific theory. But I’m a theologian, and I take the Bible with utmost seriousness. Talking about the Bible is a natural place for me to begin, both because the Bible was principally important in my youth, and because it remains so for me today.</p>

<p>I don’t mean to snub science. Science is important too. I read a lot in the sciences, and I think the evidence supporting the theory of evolution is strong. I try to take this and other evidence with great seriousness.</p>

<p>But the real story – for me – starts with the Bible.</p>

<h3>Centrality of Scripture</h3>

<p>Fortunately, my parents were committed Christians. Our family was one of those “attend-church-three-times-a-week-and-more” families. My parents were significant leaders in our local congregation, and I began following their footsteps early in life.</p>

<p>I doubt I missed more than a handful of Sunday school classes before I was twenty years old. And I always attended Vacation Bible School – even winning Bible memorizing competitions on occasion. (John 11:35 was my friend!) I participated on youth Bible quizzing team for a while too.</p>

<p>While growing up, I don’t recall anyone telling me that the Bible was the inerrant Word of God. But my passion for Scripture and my Evangelical community inclined me toward that position. Scripture was central in my life.</p>

<p>Besides, I wanted a failsafe foundation for my beliefs. And how could I convince my Mormon friends to become Christians if the Bible was not true in every sense, including literally true about what it said about the natural world? Witnessing to God’s truth seemed to require that I believe the Bible was without error on all matters, including matters related to science.</p>

<h3>An Inerrant Bible?</h3>

<p>My view of the Bible began to change when I went to college. It wasn’t that a liberal Bible professor brainwashed me away from the positions of my youth. Instead, I started reading the Bible carefully and the work of biblical scholars. I began to think it important to love God with my mind in a more consistent way.</p>

<p>And then I took a class in <em>koine</em> Greek, the language of the New Testament. In this course, I discovered several things. First, we have differing English translations of the New Testament, because the biblical text allows for a number of valid translation options. (When I later took Hebrew class, I found the diversity of valid translations even greater!) Second, we do not have access to the original biblical manuscripts/autographs. Our Bibles come from later manuscripts, the earliest of which are not complete. And, third, the oldest texts we have differ in many ways – although most differences are minor.</p>

<div class="see-also">For another view on inerrancy, see Michael Horton's post <a href="http://biologos.org/blog/the-truthfulness-of-scripture-inerrancy-part-1">"The Truthfulness of Scripture: Inerrancy"</a>.</div>

<p>I also discovered discrepancies in the Bible. For instance, in Matthew’s gospel, Jesus curses a fig tree and it withers immediately (21:18-20). But in Mark’s version of the same story, the fig tree does <em>not</em> wither immediately and the disciples find it withered the next morning (11:12-14; 20-21). Mark says that Jesus heals <em>one</em> demon-possessed man at Gerasenes (5:1-20), while Matthew says there were <em>two</em> demon-possessed men involved in that same miracle (8:28-34). Jesus tells the disciples to take a staff on their journey as recorded in Mark 6:8, but Matthew says Jesus told the disciples <em>not</em> to take a staff (10:9-10). Jesus says Jonah was three days and three nights in the whale's belly. Then, making an analogy with his own death, he says the Son of Man will be three days and three nights in the heart of the earth&nbsp;(Mt 12:40). But Jesus was not dead three days and three nights!</p>

<p>I mention only a few of the many internal discrepancies. Once I discovered a few, I noticed more. This, of course, made me question whether I should say the Bible is inerrant in all ways.</p>

<h3>What’s the Bible For?</h3>

<p>I’m persistent. I don’t settle for easy answers, ignore problems, or appeal to mystery at the drop of a hat. I want to give a plausible account of the hope within me.</p>

<p>My quest for better ways to think about the Bible prompted me to read theologians and Bible scholars from the past and present. What I found surprised me! I had assumed believing the Bible is inerrant in all ways was the traditional position of Christians throughout the ages. I assumed it was the position of my own Christian tradition. I was wrong.</p>

<p>Few if any great theologians argued the Bible was absolutely inerrant. Augustine did not affirm inerrancy in this way. Thomas Aquinas didn’t. Neither did Martin Luther or John Wesley – a least in a consistent way. And I discovered through reading and conversations that those considered the leading biblical scholars and theologians today also reject absolute biblical inerrancy.</p>

<p>I did find a few teachers who said the Bible was inerrant. But when I read their explanations of the Bible’s discrepancies and their views about the differences between the oldest manuscripts, I found they stretched the word “inerrant” beyond recognition. Their meaning of “inerrant” was nothing like the usual meaning. And it was certainly not what most Evangelicals meant when they called the Bible the inerrant Word of God.</p>

<p>Perhaps even more important was my discovery that great theologians and biblical scholars of yesteryear believed the Bible’s basic purpose was to reveal God’s desire for our salvation. Many giants of the Christian faith could agree with John Wesley who said, “The Scriptures are a complete rule of faith and practice; and they are clear in all necessary points.”</p>

<p>The necessary points of Scripture refer to instruction for our salvation. They indicate that, as the Apostle Paul puts it, Scripture is inspired and “useful for teaching, for reproof, for correction, and for training in righteousness, so that everyone who belongs to God may be proficient, equipped for every good work” (2 Tim. 3:16-17). The purpose of the Bible is our salvation!</p>

<p>I also discovered Christian leaders over the centuries did not feel required to search the Bible for truths about science. In fact, they sometimes used allegorical interpretations that seem silly to me now. The vast majority of Evangelical scholars with whom I talked also didn’t think the Bible has to be inerrant about scientific matters.</p>

<p>After my studies, I came to believe that the Bible tells us how to find abundant life. But it does not provide the science for how life became abundant.</p>

<p class="intro">Tomorrow, Tom will discuss what his evolving view of the Bible has to do with evolution.</p>
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        <pubDate>Tue, 07 May 13 08:00:22 -0700</pubDate>
        <dc:creator>Thomas Jay Oord, Dorothy Boorse</dc:creator>
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        <title>Evolution Basics: Darwin’s Early Observations on Biogeography</title>
        <link>http://biologos.org/blog/evolution&#45;basics&#45;darwins&#45;early&#45;observations&#45;on&#45;biogeography?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/evolution&#45;basics&#45;darwins&#45;early&#45;observations&#45;on&#45;biogeography?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>For Darwin, both of these observations (that oceanic islands lacked terrestrial mammals, and that endemic species on islands were most similar to a species on the closest mainland) had the same explanation: his hypothesis that endemic, oceanic species were the modified descendants of a colonizing species from the nearest continent.</description>
        <content:encoded><![CDATA[<p>In the previous post in this series, we discussed how scientific theories—broad, well-tested explanatory frameworks—get their start as hypotheses. As a hypothesis is used to make predictions, and those predictions are supported by experimentation, over time, scientists come to have more and more confidence in that hypothesis as a reliable guide for making predictions about the natural world. This means any current theory in science has gone through this transition, and its history can be traced.</p>

<p>Like any theory, Darwin’s idea that evolution proceeds through natural selection was once merely a hypothesis. In this post, we’ll look at some of the early observations Darwin made on <em>biogeography</em>: the study of where species are distributed across the globe. These lines of evidence would later prod him to consider the possibility that species arise through a natural process of gradual change over time, rather than being independently created in each location where they are found.</p>

<h3>The curious case of the missing mammals</h3>

<p><as a="" href="http://en.wikipedia.org/wiki/Second_voyage_of_HMS_Beagle" naturalist="" on="" the="" widely-travelled="">As a widely-travelled naturalist on the&nbsp;<a href="http://en.wikipedia.org/wiki/Second_voyage_of_HMS_Beagle">HMS <em>Beagle</em></a>,&nbsp;Darwin studied a large number of different environments and documented the species he found in each. <em>The Beagle</em>, engaged as it was in an effort to map the coastline of South America, naturally paid call to numerous island groups along the way, including islands at a great distance from a continent (i.e.<a href="http://en.wikipedia.org/wiki/Island#Oceanic_islands"><em>oceanic</em></a>&nbsp;islands). One observation that Darwin made about oceanic islands is that none that he studied had terrestrial mammals on them. Later work, after his voyage, would confirm that this was a general rule. Oceanic islands lack terrestrial mammal species, except for small species that were introduced by humans. In contrast, flying mammals (i.e. bats) were found on oceanic islands, and often these species were endemic (i.e. found nowhere else in the world but the island in question).</as></p>

<p>Darwin found these observations difficult to square with his (then) working assumption that species were independently created in (and specifically created <em>for</em>) the locations in which they are found across the globe. He discusses these observations, and the questions they raised in his mind, in two chapters entitled “Geographical Distribution” in his <a href="http://darwin-online.org.uk/content/frameset?pageseq=364&amp;itemID=F373&amp;viewtype=text"><em>Origin of Species</em></a>. After discussing the similar case that amphibians (such as frogs, newts, and so on) are also not to be found on oceanic islands, he turns his attention to the <a href="http://darwin-online.org.uk/content/frameset?pageseq=411&amp;itemID=F373&amp;viewtype=side">missing mammals</a>:</p>

<blockquote><p>Mammals offer another and similar case. I have carefully searched the oldest voyages, but have not finished my search; as yet I have not found a single instance, free from doubt, of a terrestrial mammal (excluding domesticated animals kept by the natives) inhabiting an island situated above 300 miles from a continent or great continental island.... It cannot be said, on the ordinary view of creation, that there has not been time for the creation of mammals; many volcanic islands are sufficiently ancient, as shown by the stupendous degradation which they have suffered and by their tertiary strata: there has also been time for the production of endemic species belonging to other classes; and on continents it is thought that mammals appear and disappear at a quicker rate than other and lower animals. Though terrestrial mammals do not occur on oceanic islands, aërial mammals do occur on almost every island. New Zealand possesses two bats found nowhere else in the world: Norfolk Island, the Viti Archipelago, the Bonin Islands, the Caroline and Marianne Archipelagoes, and Mauritius, all possess their peculiar bats. Why, it may be asked, has the supposed creative force produced bats and no other mammals on remote islands? On my view this question can easily be answered; for no terrestrial mammal can be transported across a wide space of sea, but bats can fly across. Bats have been seen wandering by day far over the Atlantic Ocean; and two North American species either regularly or occasionally visit Bermuda, at the distance of 600 miles from the mainland. I hear from Mr. Tomes, who has specially studied this family, that many of the same species have enormous ranges, and are found on continents and on far distant islands. Hence we have only to suppose that such wandering species have been modified through natural selection in their new homes in relation to their new position, and we can understand the presence of endemic bats on islands, with the absence of all terrestrial mammals.</p>
</blockquote>

<p>(As an aside, it’s important to note that Darwin, when he discusses the “supposed creative force” is not here arguing against the existence of God as creator in general, but rather against the “ordinary view of creation” common at the time: that God had episodically created species at specific geographical locations (what were called “centers of creation”) and that biogeographical patterns could be explained with limited dispersal from those centers. <a href="http://en.wikipedia.org/wiki/Charles_Darwin#Religious_views">Darwin himself</a>&nbsp;held to this common view at the start of his voyage on the <em>Beagle</em>, and that is the model he is attempting to refute in <em>Origin</em>, since it was a prevailing view among scientists at the time. Darwin and many of his scientific contemporaries also had no difficulty viewing natural processes as part of God’s regular action in the world, as is evident in Darwin’s <a href="http://www.darwinproject.ac.uk/darwin-and-design-article">correspondence</a>&nbsp;with American botanist Asa Gray, among others.)</p>

<p>So, for Darwin, his biogeographical observations sat at ease with his (later) ideas of colonization and subsequent species change through natural selection, but made no sense to him if one held to an independent creation model. Many oceanic islands were very old, yet no mammals had been created there. Many oceanic islands had habitat suitable for mammals (or, indeed, for amphibians, as he notes)&nbsp;yet no such species had been created for that suitable habitat.</p>

<h3>Island endemics and their continental “allied species”</h3>

<p>Darwin noticed more than the <em>absence</em> of certain species groups on oceanic islands. He also noticed an interesting feature of the species that were present: an endemic species on an oceanic island would often have strong similarities with a species on the mainland closest to the island in question. Additionally, the pairing of oceanic endemic species with continental species often seemed to override expectations that species found in similar environments would be more similar to each other. These observations prompted him to reflect further on the possible means by which these “closely allied species” arose. As Darwin would write in his <em>Origin</em> this repeated pattern made a significant impression on him, and further caused him to doubt that endemic species had been individually created for each oceanic island. His visit to the Galapagos would <a href="http://darwin-online.org.uk/content/frameset?pageseq=415&amp;itemID=F373&amp;viewtype=text">prove instrumental on this point</a>:</p>

<blockquote><p>The most striking and important fact for us in regard to the inhabitants of islands, is their affinity to those of the nearest mainland, without being actually the same species. Numerous instances could be given of this fact. I will give only one, that of the Galapagos Archipelago, situated under the equator, between 500 and 600 miles from the shores of South America. Here almost every product of the land and water bears the unmistakeable stamp of the American continent. There are twenty-six land birds, and twenty-five of these are ranked by Mr. Gould as distinct species, supposed to have been created here; yet the close affinity of most of these birds to American species in every character, in their habits, gestures, and tones of voice, was manifest. So it is with the other animals, and with nearly all the plants, as shown by Dr. Hooker in his admirable memoir on the Flora of this archipelago. The naturalist, looking at the inhabitants of these volcanic islands in the Pacific, distant several hundred miles from the continent, yet feels that he is standing on American land. Why should this be so? why should the species which are supposed to have been created in the Galapagos Archipelago, and nowhere else, bear so plain a stamp of affinity to those created in America? There is nothing in the conditions of life, in the geological nature of the islands, in their height or climate, or in the proportions in which the several classes are associated together, which resembles closely the conditions of the South American coast: in fact there is a considerable dissimilarity in all these respects. On the other hand, there is a considerable degree of resemblance in the volcanic nature of the soil, in climate, height, and size of the islands, between the Galapagos and Cape de Verde Archipelagos: but what an entire and absolute difference in their inhabitants! The inhabitants of the Cape de Verde Islands are related to those of Africa, like those of the Galapagos to America. I believe this grand fact can receive no sort of explanation on the ordinary view of independent creation; whereas on the view here maintained, it is obvious that the Galapagos Islands would be likely to receive colonists, whether by occasional means of transport or by formerly continuous land, from America; and the Cape de Verde Islands from Africa; and that such colonists would be liable to modification;—the principle of inheritance still betraying their original birthplace.</p>

<p>Many analogous facts could be given: indeed it is an almost universal rule that the endemic productions of islands are related to those of the nearest continent, or of other near islands.</p>
</blockquote>

<h3>Rethinking independent creation</h3>

<p>For Darwin, both of these observations (that oceanic islands lacked terrestrial mammals, and that endemic species on islands were most similar to a species on the closest mainland) had the same explanation: his hypothesis that endemic, oceanic species were the modified descendants of a colonizing species from the nearest continent. This also explained the lack of amphibians and terrestrial mammals (but allowed for bats) - simply based on the ability of these classes of life to disperse across large expanses of ocean. Those that could disperse and colonize oceanic islands would experience modification in the new environment, and species unable to colonize these islands would never appear. To Darwin’s thinking, this explanation was wholly more satisfactory than the assumption that God had independently created every endemic species in its place, and arbitrarily chosen that oceanic islands did not need terrestrial mammals and amphibians.</p>

<p>Despite Darwin’s musing on the biogeographical patterns he observed, and the strong suggestion these patterns made of species change over time, a mechanism for that change would take some time for him to imagine. In our next post, we’ll look at that mechanism: Darwin’s idea of natural selection, and the evidence he assembled in its support prior to publishing the <em>Origin</em>.</p>
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        <pubDate>Thu, 07 Mar 13 07:56:26 -0800</pubDate>
        <dc:creator>Dennis Venema</dc:creator>
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        <title>Searching for Motivated Belief: Introducing John Polkinghorne</title>
        <link>http://biologos.org/blog/searching&#45;for&#45;motivated&#45;belief&#45;introducing&#45;john&#45;polkinghorne?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/searching&#45;for&#45;motivated&#45;belief&#45;introducing&#45;john&#45;polkinghorne?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Several times in my series of columns about “Science and the Bible,” I briefly discussed a few ideas from John Polkinghorne, one of the leading Christian thinkers of our time. Although I presented him mainly as a representative of the “Theistic Evolution” (TE) view, much of his published work is about other topics, several of them largely or entirely unrelated to TE. It’s time we got better acquainted with him.</description>
        <content:encoded><![CDATA[<p>​Several times in my series of columns about <a href="http://biologos.org/blog/science-and-bible">“Science and the Bible,”</a>&nbsp;I briefly discussed a few ideas from <a href="http://www.starcourse.org/jcp/">John Polkinghorne</a>, one of the leading Christian thinkers of our time. Although I presented him mainly as a representative of the “Theistic Evolution” (TE) view, much of his published work is about other topics, several of them largely or entirely unrelated to TE. It’s time we got better acquainted with him. Over the next few months, with permission from <a href="http://yalepress.yale.edu/yupbooks/home.asp">Yale University Press</a>, BioLogos will offer edited versions of chapters from two of his best books, <em><a href="http://www.amazon.com/gp/product/0300099495/ref=as_li_ss_tl?ie=UTF8&amp;camp=1789&amp;creative=390957&amp;creativeASIN=0300099495&amp;linkCode=as2&amp;tag=thebiofou06-20">Belief in God in an Age of Science</a><img alt="" border="0" height="1" src="http://www.assoc-amazon.com/e/ir?t=thebiofou06-20&amp;l=as2&amp;o=1&amp;a=0300099495" style="border:none !important; margin:0px !important;" width="1" /></em>&nbsp;and <a href="http://yalepress.yale.edu/yupbooks/book.asp?isbn=9780300149333"><em>Theology in the Context of Science</em></a>, in order to help readers delve more deeply into some of his most important ideas. I’ll begin today with an overview of Polkinghorne’s career and calling.</p>

<h3>Introducing John Polkinghorne</h3>

<p>An Englishman of Cornish descent, John Polkinghorne was born in 1930 in the coastal town of Weston-super-Mare, southwest of Bristol in North Somerset. Although his parents had three children, an older sister died in infancy and his older brother, who served in the RAF Coastal Command during World War II, died when his plane was lost over the North Atlantic on a stormy night in 1942. Effectively an only child from that point on, his family nurtured him in their Christian faith, leading him to say a few years ago, “I cannot recall a time when I was not in some real way a member of the worshipping and believing community of the Church.”&nbsp; (<em>From Physicist to Priest</em>, p. 7)</p>

<p>At the same time, his gift for mathematics did not go unnoticed, resulting in several years of study at <a href="http://en.wikipedia.org/wiki/Trinity_College,_Cambridge">Trinity College, Cambridge</a>&nbsp;(where Isaac Newton had lived and worked in the seventeenth century). As an undergraduate, Polkinghorne studied applied math rather than pure math, a typical choice for someone interested in physics. There, he formed a close friendship with a classmate, <a href="http://en.wikipedia.org/wiki/Michael_Atiyah">Michael Atiyah</a>, who would be best man at his marriage in 1955 to another mathematics student, the late Ruth (Martin) Polkinghorne. Later knighted, Sir Michael was President of the Royal Society in the early 1990s, the same period when Polkinghorne was president of <a href="http://en.wikipedia.org/wiki/Queens%27_College,_Cambridge">Queen’s College, Cambridge</a>.</p>

<p class="caption-center"><img alt="" src="http://biologos.org/uploads/static-content/atiyah.jpg" /><br />
​Sir Michael Atiyah (<a href="http://news.bbc.co.uk/media/images/46302000/jpg/_46302623_cesar_milstein.jpg">Source</a>)</p>

<p>Polkinghorne was particularly inspired by the course in quantum physics taught by <a href="http://en.wikipedia.org/wiki/Paul_Dirac">Paul Dirac</a>, whom he has described as “undoubtedly the greatest British theoretical physicist of the twentieth century,” an opinion with which it is hard to disagree. For Polkinghorne, Dirac’s lectures were simply unforgettable: “so profound was the material, and so closely structured was the argument, that one was carried along enthralled by the experience.” (<em>From Physicist to Priest</em>, p. 26)</p>

<p class="caption-right"><img alt="" src="http://biologos.org/uploads/static-content/dirac.jpg" /><br />
Paul Dirac <a href="http://voutsadakis.com/GALLERY/ALMANAC/Year2010/Aug2010/08082010/dirac.jpg">(Source</a>)</p>

<p>Remaining at Cambridge for graduate study, Polkinghorne worked under the Pakistani physicist, <a href="http://en.wikipedia.org/wiki/Abdus_Salam">Abdus Salam</a>, who later became the first Islamic scientist to win the Nobel Prize, which he shared with <a href="http://en.wikipedia.org/wiki/Sheldon_Lee_Glashow">Americans Sheldon Glashow</a>&nbsp;and <a href="http://en.wikipedia.org/wiki/Steven_Weinberg">Steven Weinberg</a>&nbsp;for contributions to unifying the electromagnetic force and the weak nuclear force. Then he did postdoctoral work at Caltech with <a href="http://en.wikipedia.org/wiki/Murray_Gell-Mann">Murray Gell-Mann</a>, another future Nobel laureate for his work on quark theory, and attended the famous lectures by yet another future Nobel laureate, the late <a href="http://en.wikipedia.org/wiki/Richard_Feynman">Richard Feynman</a>.</p>

<p>After Caltech, Polkinghorne taught briefly at Edinburgh before returning to Cambridge, where he was soon elected to a new professorship in mathematical physics. Quantum mechanics (QM) is his specialty; his writings on both QM and its interaction with theological ideas are numerous. His book, <a href="http://press.princeton.edu/titles/2361.html"><em>The Quantum World</em></a>, has sold more than 100,000 copies, and when Oxford University Press wanted a book on this topic for their highly successful series, “A Very Short Introduction,” it was Polkinghorne <a href="http://ukcatalogue.oup.com/product/9780192802521.do#.URaCN3nhfnU">who wrote it</a>. His former students include Nobel laureate <a href="http://en.wikipedia.org/wiki/Brian_Josephson">Brian Josephson</a>, “the most precociously brilliant undergraduate that I ever taught,” and <a href="http://en.wikipedia.org/wiki/Martin_Rees,_Baron_Rees_of_Ludlow">Martin Rees</a>, who was until recently President of the Royal Society.</p>

<p>Although Polkinghorne has never won a Nobel Prize, in 1974 he was elected Fellow of the <a href="http://royalsociety.org/">Royal Society</a>, the highest honor in British science. Three years later, at the top of his scientific career at age 46, he astonished his colleagues by announcing a decision to pursue ordination as an Anglican priest; two years later, he resigned his chair at Cambridge to enter seminary. Partly, he felt played out. As a former physics student myself, I do not find his diagnosis hard to accept: “In mathematically based subjects you do not get better as you get older. Somehow one needs mental agility more than accumulated experience, and it becomes progressively harder for an old dog to learn new tricks. It is unlikely that most people do their best work before they are 25, but most do before they are 45.” Or, to put it more succinctly, “I simply felt that I had done my little bit for particle theory and the time had come to do something else.” (<em>From Physicist to Priest</em>, p. 71)</p>

<p>Nevertheless, he also felt a genuine call to the ministry, for “Christianity has always been central to my life” and ‘becoming a minister of word and sacrament would be a privileged vocation that held out the possibility of deep satisfaction.” (<em>From Physicist to Priest</em>, p. 73) After seminary, Polkinghorne served as a parish priest for many years and later as canon theologian of <a href="http://www.liverpoolcathedral.org.uk/">Liverpool Cathedral</a>. He was knighted in 1997—although, as an ordained minister, he declines to use the title, “Sir John Polkinghorne”—and was awarded the <a href="http://en.wikipedia.org/wiki/Templeton_Prize#Laureates">Templeton Prize</a>&nbsp;in 2002. It has been altogether a life well lived for the kingdom of God.</p>

<h3>Looking Ahead</h3>

<p>I’ll return in about two weeks with a summary of Polkinghorne’s basic attitudes toward science and religion, which (in his view) have a “cousinly” relationship. In the meantime, readers are invited to read Zeeya Merali’s essay, “The Priest-Physicist Who Would Marry Science to Religion,” from the March 2011 issue of <a href="http://discovermagazine.com/2011/mar/14-priest-physicist-would-marry-science-religion#.URZkmHnhfnU"><em>Discover</em> magazine</a>, and “An interview with John Polkinghorne,” by philosopher <a href="http://www.religion-online.org/showarticle.asp?title=3510">Paul Fitzgerald</a>.</p>

<h3>References</h3>

<p>John Polkinghorne, <em><a href="http://www.amazon.com/gp/product/1556359101/ref=as_li_ss_tl?ie=UTF8&amp;camp=1789&amp;creative=390957&amp;creativeASIN=1556359101&amp;linkCode=as2&amp;tag=thebiofou06-20">From Physicist to Priest: An Autobiography</a><img alt="" border="0" height="1" src="http://www.assoc-amazon.com/e/ir?t=thebiofou06-20&amp;l=as2&amp;o=1&amp;a=1556359101" style="border:none !important; margin:0px !important;" width="1" /></em> (2008).</p>
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        <pubDate>Thu, 28 Feb 13 05:00:39 -0800</pubDate>
        <dc:creator>Ted Davis</dc:creator>
        <!--<dc:date>Feb 28, 2013 05:00</dc:date>-->
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        <title>Series: A Faith Journey in a Medical Science Career</title>
        <link>http://biologos.org/blog/series/a&#45;faith&#45;journey&#45;in&#45;a&#45;medical&#45;science&#45;career?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/a&#45;faith&#45;journey&#45;in&#45;a&#45;medical&#45;science&#45;career?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>(Needs a summary)</description>
        <content:encoded><![CDATA[<blockquote>Hearken unto this, O Job: Stand still and consider the wondrous works of God. <strong>(Job 37:14)</strong></blockquote>

<p>The majority of health care workers deal with the confusing issues of life, death, and the apparent random tragedy of disease that can devastate families emotionally, financially, and spiritually. In fact, when I separate myself from the sterile aspects of a lab test review or ordering of radiographic images, I often find myself extremely saddened by the reality that children suffer from chronic disease, and in that aspect, I have found my faith to be a salve for me. I have been involved in the field of medicine for a relatively short time, only 21 years since first starting medical school. I marvel daily about the advancements of this tool that we have named “modern medicine”. Indeed, in the past 20 years alone, the progress we have made in the diagnosis and treatment of cancer, cardiovascular disease, and infectious disease has been seemingly unstoppable. Despite these advances, we have not adequately addressed how we handle various aspects of suffering (physically, spiritually, and mentally) in long-term hospitalized patients, in patients with chronic disease, and in the elderly.</p>

<p>I have often been asked if my faith has been affected by being exposed to illness and death. I would resoundingly say “No”, but I know health care workers run the entire gamut of a belief in God. There was a time when I would have said otherwise; however, my lay interest in the processes of our Earth (biologic and geologic) has convinced me of a Creator. I am a Christian, and this essay will discuss how I use my scientific and medical background to justify my faith. If you are an atheist reading this essay, you will have realized that you and I have belief differences from the beginning of this writing. If you are an evangelical Christian, I want you to realize that I am not going to talk about my conversion or my baptism. That aspect of my life is not the point of my essay, but you should know, for background, that I do accept Jesus Christ as my Savior.</p>

<p>I was born and raised in central Texas where a large percentage of the population is evangelical Christian. As I progressed through public education, I had convinced myself that I was agnostic. This was a personal decision, not based on any family influence. In fact, I had Christian parents who were educators and who had an interest in my pursuing a science career as a way of opening my mind to the needs of humanity and intellectual fulfillment. However, my trail away from my Christian faith lasted about 15 years and was most influenced by many of my evangelical classmates, especially in high school and college. I was exposed to Young Earth Creationism (YEC) by many friends, and at that time, I did not think it was even possible to reconcile a Christian faith with my interest in science.</p>

<p>In particular, I was interested in pursuing a career in paleontology or ecology, and I became even more convinced in college, that I had to make a profound choice – either I chose a career in science and reject YEC claims that had no basis in reality, or I would have to abandon a science career all together. I was only aware of those two options at that time and was not aware of a third way leading to a reconciliation of my faith. I will admit that I was fairly angry about the absolutism provided by so many of my YEC-minded friends in the face of massive amounts of biologic and geologic data. I became angry about the concept of religion in a very self-centered sort of way. Eventually and after much contemplation, I ended up going to medical school after college as opposed to a career in natural history, as I decided that the job market was more stable in medicine.</p>

<p>Two particular events enabled me to completely reconcile my faith with science. First, I took a field research class that involved traveling through the southwest United States during the summer of my junior year of college. Seeing geologic layering and signs of erosion up close in areas such as the Grand Canyon and Bryce Canyon, as opposed to hearing about the concepts in the lecture hall, made me truly appreciate deep time (Figure 1). For example, although random events over millions of years formed beautiful geologic structuring of <a href="http://en.wikipedia.org/wiki/Hoodoos">hoodoos</a> in Bryce Canyon, the wind and rain making these amazingly beautiful sandstone columns spoke of the mechanistic properties of erosion. Seeing the effects of long-term erosion as being “beautiful” led me to wonder in my tent at night why consciousness was formed to allow humans to appreciate the majesty of nature. I was able to see the Milky Way at night as I camped in the various national parks, and I further contemplated the mechanisms of gravity, light, and star formation. I was captivated by this imposed beauty on the desert floor around me, the stark ruddy canyon walls, the conifer-filled woods, and the cloudless night with a waning moon. I kept a journal during my trip which I wrote in daily. I have read it again years later, and there are passages written, crossed out by pen, then written out again with some my first inklings that I likely believed in a Creator God.</p>

<p class="caption-center"><img alt="" height="427" src="http://biologos.org/uploads/static-content/pohl_figure_1.jpg" width="570" /><br />
Figure 1: In this picture, I am showing my daughter the various rock groups of the Grand Canyon at Grand Canyon National Park in Arizona. My visit to the canyon in college brought home to me the immensity of deep time and the beauty of a natural structure suggesting to me, in a strong way, that God must exist. When this picture was taken, I wanted my daughters to see what I saw, felt what I felt, thought what I thought, when I began to really be convinced there was a Creator.</p>

<p>The second aspect that brought me back into Christianity was exposure to a pastor in my late 20s. At this point, I was deep into my medical training as a pediatric gastroenterologist, but I was starting to attend church again, although not regularly. I also was working in a lab where we were using “knock-out” mice (mice with a gene removed to assess the resultant phenotype, or the observable traits) in order to determine the mechanisms of cirrhosis of the liver. Although my contribution to the lab was not ground-breaking, I was fascinated as to how a single gene deletion could lead to down-stream effects, including morphologic changes in the liver (i.e., cirrhosis). My research had demonstrated that specific gene mutations were leading to a diseased organ, and I came to believe that the genetic code encompassed in all living creatures was not likely explained as a random, undirected process.</p>

<p>The pastor with whom I was interacting with at that time had trained in astronomy prior to going into ministry, and it was fascinating to hear him reconcile his belief in an ancient universe with his faith. He was not the least bit worried about an ancient Earth and a far more ancient universe. He believed in a Sovereign God who could certainly provide for the mechanisms of the Big Bang and the resultant world that we live in. Over the months, my discussions with him led me back to reading my Bible daily for the first time, really, in my life. In my very humble and limited opinion, I could see that God, especially through the Gospels, provided an answer to what my purpose consisted of during my time here on Earth. I was to love and serve others as best I could, and I should let God be in control of the big stuff of life.</p>

<p>Here in the lab (and previously for me in the American southwest) there appeared to be sublime mechanisms at play in the world. Even when I looked at random processes (and I do believe that God allows randomness), the grandeur of life forms that have been present on our planet for hundreds of millions of years fascinated me. I did try to convince myself that randomness was evidence of no God, but I then decided that a Creator could certainly build randomness into any biologic or geologic system to allow for the abundance of detail that we see in the natural world around us.</p>

<p>Taken together, all of these views of the world in the micro- and macro-scale convinced me to come back to Christianity. I believe strongly that there is God who has allowed natural mechanisms to take place, random or not so random, which are exhibited throughout the universe. I certainly know that my wife, my children, and I will die someday, but a re-reading of the Gospels as well as reading the great Book of Nature around us reinforced in me that there was something more for all of us, even after death.</p>

<p>I have never regretted the re-discovery of my Christian faith. I especially take these thoughts with me, when I have to talk to families about sick or dying children. These are hard conversations to have, and I find comfort knowing that evidence of a creator God is ever present around us, even as each of us heads towards the end of life and subsequently, eternity.</p>
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        <pubDate>Tue, 19 Feb 13 07:00:09 -0800</pubDate>
        <dc:creator>John Pohl</dc:creator>
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        <title>Evolution and Christian Faith Grantees Announced</title>
        <link>http://biologos.org/blog/evolution&#45;and&#45;christian&#45;faith&#45;grantees&#45;announced?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/evolution&#45;and&#45;christian&#45;faith&#45;grantees&#45;announced?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Congratulations to the 37 winners of the Evolution &amp; Christian Faith (ECF) grants competition! ECF is a new BioLogos program designed to support projects and network&#45;building among scholars, church leaders, and parachurch organizations.</description>
        <content:encoded><![CDATA[<p>Congratulations to the 37 winners of the Evolution &amp; Christian Faith (ECF) grants competition!&nbsp; ECF is a new BioLogos program designed to support projects and network-building among scholars, church leaders, and parachurch organizations. Each project takes a different approach to address theological and philosophical questions commonly voiced by Christians about evolutionary creation. ECF places a premium on scholarship with high “translational” potential—that which leaves the academy and makes an impact on the church. The program runs through August 2015.</p>

<p>Grantees will benefit from in-person interaction through a series of summer workshops in 2013, 2014, and 2015. These meetings will not only foster a broader knowledge base, but will build a sustained network of scholars and church leaders, both young and seasoned, who are serious about addressing the concerns of the church about evolution. Also in 2015, in connection with the third summer workshop, BioLogos will host a large conference open to scientists, scholars, and church leaders from around the world.</p>

<h3>ECF History</h3>

<p>In January 2012, BioLogos was awarded a multi-million dollar grant from the John Templeton Foundation to fund the work of scholars and church leaders on evolution and Christian faith. In spring 2012 we worked hard to get the word out. You may have seen announcements on the BioLogos website, in our newsletters, on the Books &amp; Culture, Leadership Journal, or First Things websites, on your professional society’s listserv, or perhaps on your friend’s blog.</p>

<p>The response was overwhelming: we received 225 letters of intent for a total request of $21 million—about seven times the amount we had to offer. We needed to invite the most promising applicants to submit a full proposal, but recognizing the projects with highest potential would require broad expertise. From the beginning, we envisioned that a panel of scientists, pastors, and scholars would oversee the application and review process as well as play key advisory roles throughout the project. A team of eight highly qualified individuals came on board in the early months of the project. They reviewed each proposal and together recommended that BioLogos invite 86 applicants to submit full applications.</p>

<p>The deadline for submissions was October 1, 2012. As in the previous round, the ECF panel evaluated each proposal. In addition, we asked 55 other experts to participate, so that each proposal received 3-4 scores. Criteria for the decision included significance of topic, project design, creativity and innovation, long-term impact potential, feasibility, and budget.</p>

<p>The panel then met together November 29-30, 2012, to make the final funding decisions. In the end, they recommended that BioLogos give 37 awards, ranging from $23,000 to $300,000. BioLogos staff notified applicants of their awards on December 14, 2013.</p>

<h3>The Grantees</h3>

<p>As part of our objective to create a network of scholars and leaders, we awarded grants to organizations across the U.S. and the world. Thirty of the 37 grantees are domestic; seven are international, hailing from Canada, France, Great Britain, Netherlands, and Spain.</p>

<p>Two-thirds of the accepted projects will be led by teams—some with three or more Project Leaders. We expect that the teamwork and time spent together at our summer workshops will be the start of a long-lasting network of people dedicated to helping the church think carefully about origins.</p>

<p>Applicants chose to apply under one of three program tracks: interdisciplinary scholarship (Track 1), intra-disciplinary scholarship (Track 2), and translational projects (Track 3). Track 1 projects focus on both the collaboration between individuals in different disciplines and the development of projects at the interface of different content areas. Track 2 projects focus on work done within a specific discipline. Track 3 focuses on projects that encourage Christians, especially those within more conservative traditions, to engage in meaningful and productive dialogue to reduce tensions between mainstream science and the Christian faith. The numbers of grantees in Tracks 1, 2, and 3 are 6, 8, and 23, respectively.</p>

<p>Many of the scholarly projects tackle questions about Adam and Eve, the Fall, human identity, and Original Sin—some of the most critical interpretive issues for evangelical theology.&nbsp; Some examples:&nbsp;</p>

<ul>
<li><p>Theologian Oliver Crisp of Fuller Seminary will take an analytic theology approach to ask to what extent a theological account of the origin of human sin depends upon the evolution of modern humans from one and only one ancestral pair—especially if that pair does not appear to correspond to what we would think of as modern human beings.&nbsp;</p>
</li>
<li><p>Pastor Michael Gulker and philosopher James Smith, leading a large team from The Colossian Forum, ask a related question: if humanity emerged from non-human primates—as genetic, biological, and archaeological evidence seems to suggest—then what are the implications for Christian theology’s traditional account of origins, including both the origin of humanity and the origin of sin?&nbsp;</p>
</li>
<li><p>Biologist Dennis Venema of Trinity Western University and New Testament scholar Scot McKnight of Northern Seminary will write a book on the evidence for evolution and population genetics, with informed theological reflection on how these issues interact with orthodox Christianity.</p>
</li>
<li><p>Biologist David Wilcox of Eastern University will develop an updated model of human identity which reflects the complex recent scientific advances in genetics and paleoanthropology and yet is sensitive to theological concerns.&nbsp;&nbsp;</p>
</li>
</ul>

<p>These are just a few of the scholarly awards; check out the <a href="/ecf/grantees">Grantees page</a> for full descriptions of all Track 1 and Track 2 projects.</p>

<p>All projects have translational potential, but Track 3 projects are designed to meet the needs of a particular constituency within the evangelical church. These projects run the gamut from ethics to education to media production to ministry resources. &nbsp;Some examples include:</p>

<ul>
<li><p>Theologian Lee Camp of Lipscomb University will produce “The Questions in Monkey Town,” an episode of Tokens, a live variety show that features musical performances, comedic sketches, brief interpretive monologues, and dialog with authors and scholars. The episode will be performed and filmed on the site of the famous Scopes Trial in Dayton, Tennessee.</p>
</li>
<li><p>Chaplain Joshua Hayashi and Educator Diane Sweeney of the Punahou School in Hawaii will lead a team to produce multimedia curricula aimed at helping high school students connect with their biology curricula and, at the same time, deepen their Christian faith.</p>
</li>
<li><p>Physics teacher and pastor Benoît Hébert of Science et Foi Chrétienne in France will lead an international, multi-denominational team of French speaking Evangelical scientists, pastors and church leaders to produce a large number of resources on evolutionary creation.</p>
</li>
<li><p>Pastor Seung-Hwan Kim of Grace Truth Community Church, a Southern Baptist church in Cambridge, Massachusetts, will produce teaching and preaching materials about evolution for church leaders.</p>
</li>
<li><p>President Gregory Wolfe and Director of Resource Development for IMAGE will gather artists and writers of faith whose work explores the dialogue between evolutionary science and faith practice, convening a conversation between them and scientists, theologians, and church leaders in private and public conferences.</p>
</li>
</ul>

<p>Again, this is just a taste of the diversity of Track 3 projects. Read more about each project on the <a href="/ecf/grantees">Grantees page</a>. You can look forward to an incredible variety of resources coming out of the ECF program, many of which will be featured right here on the BioLogos Forum.</p>
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        <pubDate>Wed, 13 Feb 13 05:25:03 -0800</pubDate>
        <dc:creator>Kathryn Applegate</dc:creator>
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        <title>Where are the Transitional Fossils?</title>
        <link>http://biologos.org/blog/where&#45;are&#45;the&#45;transitional&#45;fossils?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/where&#45;are&#45;the&#45;transitional&#45;fossils?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>A common argument leveled against the theory of evolution is that scientists have not been able to produce transitional fossils that show the change of one species into another.  In this podcast, we address a common misconception about what transitional fossils actually are.</description>
        <content:encoded><![CDATA[<p align="center"><iframe src="http://player.vimeo.com/video/31875051?title=0&amp;byline=0&amp;portrait=0" width="570" height="428" frameborder="0" webkitAllowFullScreen allowFullScreen></iframe></p>

<p>A common argument leveled against the theory of evolution is that scientists have not been able to produce the expected transitional fossils that show the change of one species into another. If evolution were true, wouldn’t there be instances of clear intermediary species, like, for example, a species that was half whale and half hippo to show the transition between those two? In this BioLogos podcast, Kelsey Luoma addresses this misconception about what a transitional fossil actually is. Rather than a mix between two related species, transitional fossils point back to the common ancestors that modern species share. The fact is that the number of transitional species is massive and it grows with each passing year.  Given the rarity with which organisms are actually fossilized, the amazing thing is actually the completeness of the fossil record, not its incompleteness.  The transitional species story strongly supports, and certainly does not disprove, evolutionary theory. <sup>1</sup></p>

<p class="date">1. To hear the full audio clips which have been referenced go to:</p>
<ul><li><a href="http://www.youtube.com/watch?v=X6EmOQLf25s&feature=BFa&list=PLACF41F3DDBCA4565&lf=results_video&noredirect=1" target="_blank">Rational Response Debate with Kirk Cameron (from Way of the Masters)</a></li>
<li><a href="http://www.youtube.com/watch?v=FN9wyn9xVko&feature=related" target="_blank">Behind the Scenes with Dr. Neil Shubin (from Cincinnati Museum Center)</a></li>
<li><a href="http://www.youtube.com/watch?v=fVNXXLLUYFM' target="_blank">Mark Norell Publishes New Archaeopteryx Findings (from American Museum of Natural Sciences)</a></li>
<li><a href="http://www.youtube.com/watch?v=VmtDGjfMajM" target="_blank">Texas A&M Professor Discusses Findings of Autralopithecus Sediba and its Relationship to Humans (from Texas A&M University)</a></li>
<li>Intro/outro music composed by Martin Minor (<a href="http://www.looperman.com/users/profile/159051" target="_blank">Minor2Go</a>).</li> </ul> </p>

<p><strong>An audio only version of the podcast can be downloaded <a href="http://biologos.org/uploads/resources/fossil_podcast_final.mp3" target="_blank">here</a>.</strong></p>
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        <pubDate>Fri, 01 Feb 13 08:57:28 -0800</pubDate>
        <dc:creator>Kelsey Luoma</dc:creator>
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        <title>Dissonance and Harmony</title>
        <link>http://biologos.org/blog/dissonance&#45;and&#45;harmony?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/dissonance&#45;and&#45;harmony?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>People hold clearly discordant points of view, and it would be dishonest to ignore the conflict. Yet some voices emphasize the dissonance without any note of harmony to put it in context. Too often, science and faith becomes a hostile battle of worldviews, sounding angry, dissonant chords even among fellow Christians. But civil, gracious dialogue is possible.</description>
        <content:encoded><![CDATA[<p>As soon as my older brother began piano lessons, I begged to play the piano too. My parents decided to let me try, which led to cute pictures of a 4-year-old climbing up onto the piano bench at her first recital. Like all young students, I started with scales and simple pieces, but over the years, my love for music deepened and matured. My piano teachers showed me that a beautiful concluding chord was often preceded by a dissonant clash. Dissonances sound harsh by themselves, but without them, music would sound boring and trite. If I rushed past the dissonance, the final resolution was not as beautiful. Instead, I learned to pause on the dissonant notes, to carefully place them in the context of the surrounding harmonious chords. The dissonance and harmony together formed more beautiful music than either alone.</p>

<p>Conversations about science and faith can be like that. People hold clearly discordant points of view, and it would be dishonest to ignore the conflict. Yet some voices emphasize the dissonance without any note of harmony to put it in context. Too often, science and faith becomes a hostile battle of worldviews, sounding angry, dissonant chords even among fellow Christians. But civil, gracious dialogue is possible. On the BioLogos Forum, we invite authors from a range of positions, including some that don't agree with all our <a href="/about">beliefs</a>, but we strive to set these dialogues in a context of respect and civility. When authors are fellow Christians, we don’t shy away from disagreements, but remember the broader context of our unity as fellow believers, the harmony that binds us together.</p>

<p>My own story is more harmonious than dissonant. My interest in music was paralleled by my interest in math and science and my involvement in church. My family and teachers encouraged my interests in science, and I remember how fun it was to play math games with my dad and brother. And every week we were in church: twice on Sunday, plus Wednesday night club, youth group activities, and Bible quizzing. While my church accepted the young earth position, they didn’t emphasize it, and I was never told that a particular science view was essential to being a Christian. When I encountered the evidence for the age of the universe and the evolution of life, I also found Christian authors who showed me how this scientific evidence could fit with Christian beliefs.</p>

<p>But others have experienced more dissonance. Nearly four years ago, Dr. Francis Collins launched this website with the story of a young university student in the midst of a profound personal crisis, what Dr. Collins called “a wrenching crisis of worldviews shaking her deepest foundations.” Without a context of harmony, too many people – young and old – feel they have to choose between two incompatible positions, either Christian faith or the findings of science. BioLogos exists to show another way. We hold fast to the authority of the Bible and the core beliefs of Christianity, and at the same time, accept the rigorous conclusions of mainstream science.</p>

<p>It is with these chords of dissonance and resolution in mind that I come to this opportunity to lead BioLogos. I have long sensed God’s calling to serve the church as part of this dialogue. Some of you know of me from a book I wrote in 2007 with my husband Loren, called <em>Origins</em>. I’ve been speaking and writing on science and faith for many years, but I did this around the edges of my primary career of teaching and research in astronomy. While I thoroughly enjoy teaching students and doing research, over the last year I have recognized God’s hand in leading me to shift my fulltime work to the science and faith dialogue. Now I’m looking forward to using and developing my gifts in service of BioLogos.</p>

<p>Joining me as a new member of the leadership team is Dr. Jeff Schloss, who will serve as our Senior Scholar. Many of you are already familiar with his work, and know he brings not only a strong track record of scholarship in evolution and philosophy, but tremendous skill in communicating to lay audiences. Jeff and I share a deep commitment to the unity of the body of Christ and a desire to remove barriers for people to come to Christ. I am delighted to have him on board.</p>

<p>Jeff and I inherit a strong and vibrant organization from our outgoing President, Dr. Darrel Falk. Darrel brought his deep love and concern for the church, along with his considerable creativity and hard work, to this effort. We plan to continue and build on the excellent programs he established.</p>

<p>One of the pleasures of my first few weeks on the job has been getting to know the BioLogos staff. Kathryn, Lisa, Stephen, Mike, Laura J, and LeAnne each bring key skills to the organization, as well as energy and a passion for the mission of BioLogos. The team keeps BioLogos functioning behind the scenes, from finances to computer programming to event planning. Two team members, Mark Sprinkle and Tom Burnett, have decided to move on to other opportunities after a year of dedicated service to BioLogos. As web editors, Mark and Tom revamped the blog, making it a forum for rich scholarly dialogue and vibrant testimonies, and drawing in new authors to write on a great mix of topics. They also organized the archived material, so that the best of BioLogos is readily accessible. We wish them well in their new endeavors. Joining the BioLogos team is Emily Ruppel as Interim Web Editor. You may know Emily from her work to develop and edit the e-zine God &amp; Nature for the American Scientific Affiliation; she will join us part time at BioLogos while she continues to work with ASA.</p>

<p>We believe God has great things in store for BioLogos. We will continue to focus on connecting with scholars, pastors, teachers, and lay people, but in the months ahead, we will also be sharpening our vision and engaging afresh in strategic planning. We’ll be considering new audiences, new programs, and new priorities. I invite your comments below on directions you’d like to see BioLogos take.</p>

<p>In just a few years, this organization has impacted the lives of thousands of Christians and brought an important voice to discussions taking place within the church. Thanks to the strong support from The John Templeton Foundation and many other generous donors, the vision of Francis Collins is thriving. BioLogos is on the cusp of enormous opportunities and huge potential. While transitions are times of risk and vulnerability, they are also times of great opportunity. My prayer is that God will give us wisdom and guidance to be good stewards of this opportunity. May God continue to use BioLogos to bring harmony to a conversation that has emphasized dissonance for far too long.</p>
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        <pubDate>Wed, 30 Jan 13 07:00:34 -0800</pubDate>
        <dc:creator>Deborah Haarsma</dc:creator>
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        <title>Series: Confronting Our Fears</title>
        <link>http://biologos.org/blog/series/confronting&#45;our&#45;fears?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/confronting&#45;our&#45;fears?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In this series, U.S. Navy Commander Mike Beidler shares his own personal journey from accepting young&#45;earth creationism to embracing evolutionary creationism.</description>
        <content:encoded><![CDATA[<p>As we continue our tour of fears that confront evangelicals considering evolutionary creation, I’d like to start with an extended (and possibly familiar) quote from Augustine about what’s at stake when we ask, “What if I’m wrong?”</p>

<blockquote>Usually, even a non-Christian knows something about the earth, the heavens, and the other elements of this world, about the motion and orbit of the stars and even their size and relative positions, about the predictable eclipses of the sun and moon, the cycles of the years and the seasons, about the kinds of animals, shrubs, stones, and so forth, and this knowledge he holds to as being certain from reason and experience.<br />
<br />
Now, it is a disgraceful and dangerous thing for an infidel to hear a Christian, presumably giving the meaning of Holy Scripture, talking nonsense on these topics; and we should take all means to prevent such an embarrassing situation, in which people show up vast ignorance in a Christian and laugh it to scorn. The shame is not so much that an ignorant individual is derided, but that people outside the household of faith think our sacred writers held such opinions, and, to the great loss of those for whose salvation we toil, the writers of our Scripture are criticized and rejected as unlearned men.<br />
<br />
If they find a Christian mistaken in a field which they themselves know well and hear him maintaining his foolish opinions about our books, how are they going to believe those books in matters concerning the resurrection of the dead, the hope of eternal life, and the kingdom of heaven, when they think their pages are full of falsehoods and on facts which they themselves have learnt from experience and the light of reason?<br />
<br />
Reckless and incompetent expounders of Holy Scripture bring untold trouble and sorrow on their wiser brethren when they are caught in one of their mischievous false opinions and are taken to task by those who are not bound by the authority of our sacred books. For then, to defend their utterly foolish and obviously untrue statements, they will try to call upon Holy Scripture for proof and even recite from memory many passages which they think support their position, although they understand neither what they say nor the things about which they make assertion.<sup>1</sup><br />
<br />
– St. Augustine of Hippo (AD 354-430)</blockquote>

<p>For a good portion of my life, I had an extremely difficult time admitting that I was wrong. To do so was an admission of intellectual failure, faulty logic, or simple <em>ignorance</em>—not knowing everything about everything.<sup>2</sup> Being wrong is a hard pill to swallow sometimes, because in many cases it equates to losing face. As it pertains to the creation-evolution debate, I believe that we evangelical Christians tend to express that fear by “holding the line” against certain areas of scientific study, rather than being willing to admit that we might be wrong. In most cases, we have no problem accepting the authority of the world’s best physicists, chemists, meteorologists, engineers, and physicians. Our problem tends to be with scientific authorities in only certain areas of study, such as biology, anthropology, paleontology, geology, and astronomy. Why? It’s because the Bible is the divinely inspired word of God and these areas conflict with the plain reading of Scripture, right?</p>

<p>When we evangelicals come to the table of scientific discussion, we tend to pick and choose those “foods” which appeal to us, while wrinkling our noses at what our theological tastes find disagreeable. As long as the menu includes a wide assortment of things we already like, and we share the table with people with similar tastes, we can get along just fine with this strategy. But is this wise in, say, a survival situation? Food is food, and if we’re hungry enough and don’t have a life-threatening allergic reaction to something specific, I would venture to guess that we’d dig right in without a second thought. In regard to the creation-evolution debate, I am convinced that the evangelical church will find itself in dire straights if we intentionally starve ourselves intellectually, especially with a healthy banquet in full sight and within reach. I also think having a too-restricted “diet” limits our ability to sit down with those outside the church and can, as Augustine believed, play a role in actually prohibiting the secular world at large from coming to a saving knowledge of Christ, “to the great loss of those for whose salvation we toil.” Several years ago, Bruce Waltke, former Evangelical Theological Society president and former professor of Old Testament at Dallas Theological Seminary, updated Augustine’s caution in a brief <a href="http://biologos.org/blog/why-must-the-church-come-to-accept-evolution">video</a> production for BioLogos, suggesting that the church risks losing our ability to really interact with the world if we don’t trust God’s providence in this area. Wheaton College’s Professor of Christian Thought, Mark Noll, as the very first sentence of his book <em>The Scandal of the Evangelical Mind</em> writes, “The scandal of the evangelical mind is that there is not much of an evangelical mind.”<sup>3</sup> If not for the fact that I’ve never met Professor Noll, I’d believe he was talking about me a decade ago.</p>

<p>What drives us evangelical Christians to “hold the line” against acknowledging truths in these certain categories of scientific knowledge? After undergoing several theological shifts myself over the last decade, and seeing others do the same, I believe I’ve been able to “reverse engineer” what happened in my own life: It was a subtle slide from a confident faith into a comfortable, unwitting arrogance. When we believe that we are in an intimate spiritual union with the Creator of the universe, it’s quite easy to forget (if we ever understood this in the first place) that God can couch theological truth in a variety of literary genres and, yes, even in the context of ancient, scientifically inaccurate cosmologies.<sup>4</sup> Caught up in the awesome truth of spiritual union, what makes perfect sense to us at any particular point in our spiritual walk can be easily confused with “<em>the</em> truth.” We also gravitate toward churches that conform to our particular belief systems. We prefer pastors who preach to the choir. We buy books that support our particular theological system. To attend another church, listen to a theologically edgy pastor, or read a book from a completely opposite viewpoint from what we’re accustomed to would be to invite a considerable measure of tension into an otherwise comfortable intellectual and spiritual environment.</p>

<p>How many of us actually have or take the time to study evolutionary biology, theology, the history of biblical interpretation, ANE literature, or modern translations of Babylonian creation myths? I would venture to guess that very few of us have the same opportunities that professional scientists and theologians take for granted in their academic careers. To overcome the fear of losing intellectual face, I recommend exposing oneself to different ways of thinking about these topics, including perspectives that you might deem “outside the box.” Reading multi-view comparisons and critiques, such as those found in Zondervan’s wonderful Counterpoints series, is particularly helpful in this regard. Familiarity with and exposure to these views helps temper that initial fear or shock when we come across those few brothers and sisters in Christ who opt to take another approach to any one topic. (One youth pastor friend of mine, when discovering my views on a particular topic, approached me and excitedly exclaimed that meeting me was like meeting a dragon: “You hear stories about them, but you never see one!”)</p>

<p>A word of warning: Before I adopted evolutionary creationism, my neatly packed theology was virtually stress-free. Ignorance was truly bliss. Then came the paradigm shift, and all sorts of previously suppressed tension, questions, and doubts rose to the surface. Another word of warning: If you’re <em>not</em> confronted with tension, questions, and doubts in your day-to-day spiritual walk, something’s wrong. Wrestling with theological issues is not an activity to be avoided; it is a discipline to be vigorously pursued! If you are comfortable enough in your relationship with the risen Savior, you should not fear admitting your ignorance on various topics and entering into a period of temporary uncertainty. This fear can be remedied by taking advantage of a fully informed palette of theological options provided by genuine Jesus followers, including those that embrace biblical criticism. If one’s faith is truly rooted in the One by, for, and through Whom all things were made, all the theories put forth by the higher biblical critics and esoteric scientists should be no cause for fear—but all should be cause for loving dialogue.</p>

<h3>Notes</h3>

<p class="date">1. St. Augustine of Hippo, <em>The Literal Meaning of Genesis (De Genesi ad litteram)</em>, Trans. J. H. Taylor, in <em>Ancient Christian Writers</em> (Long Prairie, MN: Newman Press, 1982), vol. 41.<br />
2. “Ignorant,” Oxford Dictionaries, accessed October 08, 2012, <a href="http://oxforddictionaries.com/definition/english/ignorant">http://oxforddictionaries.com/definition/english/ignorant</a>.<br />
3. Mark A. Noll, <em>The Scandal of the Evangelical Mind</em> (Grand Rapids: William B. Eerdmans Publishing Company, 1994), 3.<br />
4. See Denis Lamoureux, <em>Evolutionary Creation: A Christian Approach to Evolution</em> (Eugene, OR: Wipf and Stock Publishers, 2008); Brian Godawa, <a href="http://biologos.org/uploads/projects/godawa_scholarly_paper_2.pdf">“Mesopotamian Cosmic Geography in the Bible,”</a> accessed October 04, 2012.</p>
]]></content:encoded>
        <pubDate>Fri, 30 Nov 12 03:58:41 -0800</pubDate>
        <dc:creator>Mike Beidler</dc:creator>
        <!--<dc:date>Nov 30, 2012 03:58</dc:date>-->
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        <title>Growing in Faith</title>
        <link>http://biologos.org/blog/growing&#45;in&#45;faith?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/growing&#45;in&#45;faith?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>As he endeavored to learn more, David was intrigued by Francis Collins book The Language of God because Francis did not present evolution as a rival theory to Christian faith, but as something that described God&apos;s method of creation.</description>
        <content:encoded><![CDATA[<br> </br>
<p>Growing up, David believed that Young Earth Creationism was <em>the</em> Christian position on origins and how God created.  As he endeavored to learn more, he was intrigued by Francis Collins book <em>The Language of God</em> because Francis did not present evolution as a rival theory to Christian faith, but as something that described God's method of creation. David studied biblical interpretation and found John Walton's scholarship to be tremendously helpful in understanding the original purpose and intent of the Genesis narrative.</p>

<p>Reflecting on his personal journey, David thinks that it is important that we don't oversimplify questions related to science and faith, but that we explore them deeply in order to understand science in a robust, Christian way. </p>]]></content:encoded>
        <pubDate>Fri, 12 Oct 12 05:00:28 -0700</pubDate>
        <dc:creator>David Buller</dc:creator>
        <!--<dc:date>Oct 12, 2012 05:00</dc:date>-->
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            <item>
        <title>Series: Decoding ENCODE</title>
        <link>http://biologos.org/blog/series/decoding&#45;encode&#45;series?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/decoding&#45;encode&#45;series?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>The BioLogos Foundation explains to the findings of the Encyclopedia of DNA Elements (ENCODE) project and responds to the claims that its discoveries challenge the theory of evolution, especially regarding so&#45;called &quot;junk DNA&quot;.</description>
        <content:encoded><![CDATA[<p>In 2003, under the leadership of BioLogos founder Francis Collins, the Human Genome Project sequenced the full human genome, showing us for the first time the order of the 3.2 billion chemical “bases” that make up the rungs of DNA’s double helix structure. The project identified and mapped 23,000 genes that code for proteins, but those genes make up less than 2% of the total sequence—far fewer than originally predicted, given the complexity of humans. While many non-coding sequences were identified as having function as well, there were still vast swaths of the genome that had no obvious function. In fact, what was known about certain classes of sequences suggested that they had no functional role for humans—such as the sequences identified as either transposons or transposon fragments that make up nearly half of our genome. These sorts of sequences seemed to fit into what was popularly known as the “junk DNA” category. </p>

<p>With the complete genome sequence in hand, we knew the sequence and location of our genes, but what we didn’t know was how all those genes are regulated: how do the trillions of cells in our bodies know when to turn on or off all those genes?  How do the hundreds of distinct cell types develop and function together, when they are all running on the same DNA “operating system?”  </p>
<p>That’s where the ENCODE (short for Encyclopedia of DNA Elements) project comes in. Launched in September 2003, shortly after the announced completion of the Human Genome Project, the goal of the ENCODE project is “to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active.” In other words, the project seeks to understand how the genome “works.”</p>

<p>Early this month, researchers from ENCODE released more than thirty papers presenting their findings. During a <em>Science</em> magazine <a href="http://news.sciencemag.org/sciencenow/2012/09/live-chat-figuring-out-what-dna.html">online chat</a>, the project’s data coordinator, Ewan Birney, explained the outcome:</p>

<blockquote>The ENCODE project aimed to start our understanding of how the human genome works. We know that (nearly) all the information that determines a human is in the genome, as we all start off as single cell with this DNA. However, we had a patchy understanding of how it works, in particular away from protein coding genes.<br /><br />

To work out how the genome works, we used the fact there are many tiny machines (proteins and RNA - RNA is very like DNA) in each of our cells which know how to "read" parts of the genome. By monitoring where these little molecular machines are on the genome, or how parts of the DNA are copied into RNA (there are quite a few different types of RNA as well), we start to gain some insight into the genome.<br /><br />

We did many such experiments, across different cell types (eg, one cell type was very similar to a liver cell type; another was very similar to a white blood cell). This way not only can we see what is similar, we can also see differences between these cell types.<br /><br />

There is a lot more to get to know and understand here - this is definitely closer to the start than the end. But it is a substantial amount of data, and analysis, to start on this journey.</blockquote>

<p>According to the abstract of one of the <a href="http://www.nature.com/nature/journal/v489/n7414/full/nature11247.html">lead papers</a> from <em>Nature</em>, this extraordinary glut of data “enabled us to assign biochemical functions for 80% of the genome, in particular outside of the well-studied protein-coding regions.”  Only 2% of the genome codes for proteins, but 80% or more has <em>some</em> biochemical function.  As a <em>Science</em> <a href="http://www.sciencemag.org/content/337/6099/1159">news article</a> put it, these 30 papers “sound the death knell for the idea that our DNA is mostly littered with useless bases.”</p>

<p>The pro-Intelligent Design organization The Discovery Institute has heralded the discovery as the “demise of junk DNA.”  Casey Luskin writes for their <a href="http://www.evolutionnews.org/2012/09/junk_no_more_en_1064001.html">blog</a> <em>Evolution News</em>:</p>

<blockquote>Let's simply observe that it provides a stunning vindication of the prediction of intelligent design that the genome will turn out to have mass functionality for so-called "junk" DNA. ENCODE researchers use words like "surprising" or "unprecedented." They talk about of how "human DNA is a lot more active than we expected." But under an intelligent design paradigm, none of this is surprising. In fact, it is exactly what ID predicted.</blockquote>

<p>The extent to which the ENCODE project been able to identify function has been surprising—even exhilarating—though scientists have for some time been getting glimpses of the many ways in which segments of DNA can be “active.”  Even in 1970 biologists knew that some non-coding DNA had function, and by 2003 there was a large body of work demonstrating that many non-coding elements acted as promoters, enhancers, insulators, and so on. Indeed, in recent years many have come to appreciate the fact that “junk” was never really an appropriate metaphor in the first place.   Still, because sequencing of multiple genomes has shed such extraordinary light on key evolutionary mechanisms, many geneticists have focused on function primarily in terms of which regions do or do not contribute to the evolutionary fitness of their host, rather than whether they were merely "doing something" biochemically.  What the impressive ENCODE project has done is open a treasure trove of new information that can only accelerate the pace at which researchers are able to explore the incredible subtlety and complexity of DNA, and refine the very concept of “functionality.” </p>

<p>So with all this in mind, is ENCODE a stunning victory for ID, as Luskin believes? Bryan College biologist Todd Wood thinks not.  He <a href="http://toddcwood.blogspot.co.uk/2012/09/everyones-excited-about-encode.html">writes</a>, “I don't think that function equates to design, nor do I think that design requires or predicts function.  They're not the same thing… my understanding of function does not require me to hypothesize God (or an anonymous designer, if you must) as the proximal cause.”  </p>

<p>We agree.  Indeed we would go on to say that evolution and design are not mutually exclusive.  So while finding function is not sufficient to prove design, recognizing that function has arisen by way of evolution does not indicate that God was not at work.  We at BioLogos believe God providentially works out his purposes—his designs—<em>through</em> the elegant processes of evolution, not in opposition to them.</p>

<p>Amazing as the new data are, it only strengthens and enhances our evidence for evolution.  While much of the genome is “doing something” biochemically, it is still likely that the majority of the sequence is evolutionarily neutral (Senior Fellow Dennis Venema discusses the evidence for this “neutrality” in a <a href="http://biologos.org/blog/understanding-evolution-is-there-junk-in-your-genome-part-1">post</a> on our site, including a striking comparison between 29 different mammal genomes and the human genome).  In fact, another  ENCODE researcher participating in the <em>Science</em> magazine chat, John A. Stamatoyannopoulos of the University of Washington School of Medicine, thinks the findings align beautifully with evolutionary theory:
</p>

<blockquote>ENCODE's data provide a unique and powerful window through which to view evolutionary change. We can see those changes directly by lining up the genome sequences of many different organisms -- these line-ups have revealed millions of regions where all the genomes agree, indicating sequences that have been specially preserved by evolution while others have decayed away (ie freely changed their letter codes). We now see that a large proportion of these 'conserved' regions are lighted up by ENCODE annotations, indicating that they are marking spots in the genome that contain important instructions for cell function.</blockquote>

<p>We’ve discussed “junk” DNA previously, including a multi-part series by Dennis Venema, and we’ve received many emails over the past few days asking for our comments on the ENCODE findings. On Monday and Tuesday, Dr. Venema will begin to offer his own thoughts on ENCODE.</p>

<p class="intro">A special thanks goes to Darrel Falk, Mark Sprinkle, Kathryn Applegate, Dennis Venema, and Tom Burnett for their contributions to this post.</p>]]></content:encoded>
        <pubDate>Wed, 26 Sep 12 05:00:35 -0700</pubDate>
        <dc:creator>Stephen Mapes, Dennis Venema</dc:creator>
        <!--<dc:date>Sep 26, 2012 05:00</dc:date>-->
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        <title>Denisovans, Humans and the Chromosome 2 Fusion</title>
        <link>http://biologos.org/blog/denisovans&#45;humans&#45;and&#45;the&#45;chromosome&#45;2&#45;fusion?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/denisovans&#45;humans&#45;and&#45;the&#45;chromosome&#45;2&#45;fusion?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>The Denisovans, an extinct hominid group that interbred with modern humans, made the news again lately with the publication of a more detailed study of their genome. One of the many interesting findings was that the Denisovans share the same chromosome 2 fusion that modern humans have.</description>
        <content:encoded><![CDATA[<br> </br><p>The Denisovans, an extinct hominid group that interbred with modern humans, made the news again lately with the publication of a more detailed study of their genome. One of the many interesting findings was that the Denisovans share the same chromosome 2 fusion that modern humans have. In this post, I review what we know about the origins of human chromosome 2, and then discuss the new Denisovan findings and their implications. </p>

<h3>The origins of human chromosome 2: a brief review</h3>
<p>Though I have discussed the evidence for a fusion event leading to human chromosome 2 before, perhaps a brief review of the evidence is in order. The human genome is made up of 23 pairs of chromosomes (for a total of 46 chromosomes). This makes us something of an oddity among living great apes, all the rest of whom  have 24 pairs of chromosomes (for a total of 48). Given that there are many independent lines of evidence that support the conclusion that we share a common ancestor with other great apes, this poses something of a conundrum: how is it that our species arrived at this specific chromosome number? If we were to represent this “problem” on a phylogeny, or tree of relatedness, it would look something like this (not to scale):</p>

<p class="caption-center"><img src="http://biologos.org/uploads/static-content/denisovans_fig_1.jpg" alt="" height="357" width="434"  /></p>
 
<p>Our closest living relatives, chimpanzees and bonobos, both have 48 chromosomes, as do all other great apes such as gorillas and orangutans. This pattern has one of two explanations, one of which is much more likely than the other. Either the common ancestor to these species had 48 chromosomes, and there was an event that reduced that number to 46 specifically on the lineage leading to humans (option A), or the common ancestor species had 46 chromosomes, and there were independent, repeated events that increased chromosome number in all other great ape species (option B). We can compare these options by placing the required event(s) on the phylogeny (again, not to scale): </p>

<p class="caption-center"><img src="http://biologos.org/uploads/static-content/denisovans_fig_2.jpg" alt="" height="300" width="570"  /></p>
 
<p>It should be obvious that the option that requires the fewest events is the more likely one – in this case option A with an event that reduces chromosome number in the lineage leading to humans. The other option, that of repeated, independent events to increase chromosome number, remains a formal, but unlikely, possibility. Events that reduce chromosome number are not frequent occurrences, so Option A is more likely than Option B.</p>

<p>We can also find further support for Option A, because it predicts a specific type of event, namely one that reduces chromosome number. Since <em>loss</em> of a large amount of chromosomal material is almost always detrimental, we need an event that reduces chromosome number without losing information. One way for this to happen is for two chromosomes to fuse together and become one. Initially, this event would produce an individual with 47 chromosomes, where two different chromosomes get stuck together. Contrary to what is often assumed, this individual would be fertile and able to interbreed with the others in his or her population (who continue to have 48 chromosomes). In a small population, over time, two relatives who both have one copy of the fusion chromosome may mate and produce some progeny with two copies of the fused chromosome, or the first individuals with 46 chromosomes. Since either a 48-pair set or a 46-pair set is preferable for ease of cell division, this population will either eventually get rid of the fusion variant (the most likely outcome), or by chance will switch over completely to the “new” form, with everyone bearing 46 chromosome pairs. While not overly likely, this type of event is not especially rare in mammals, and we have observed this sort of thing happening within recorded human history in other species.  Some mammalian species even maintain distinct populations in the wild with differing chromosome numbers due to fusions, and these populations retain the ability to interbreed. </p>

<p>Further evidence for a fusion event in the lineage leading to modern humans comes from comparing <em>synteny</em>, or gene locations and orders on chromosomes within modern great apes – an issue we have discussed <a href="http://biologos.org/blog/signature-in-the-synteny">here</a> before.  In brief, what we see in human chromosome 2 is exactly what we would predict for a fusion event. When compared to other great apes, we see the genes on human chromosome 2 match up, in order, with two smaller ape chromosomes. We also see that sequences used at the tips of chromosomes are present at the proposed fusion site, and that human chromosome 2 has not one but two sites for the cell cytoskeleton to attach to for cell division – but that one of the sites is mutated and not functional, though it lines up precisely with the location of this site on the appropriate ape chromosome. Together, this evidence consistently supports both common ancestry for humans and great apes, and specifically that the difference we see in our chromosome numbers arose due to a single fusion event. I briefly discussed this evidence in my <a href="http://biologos.org/blog/the-sorrows-and-joys-of-teaching-evolution">last post</a> where I describe how I teach some of this material and the compelling impact it has on students exploring the evolution question for the first time. </p>

<h3>Enter the Denisovans</h3>
<p>With that as background, we are now prepared to appreciate a new finding that comes from genomics work done on the Denisovan hominids, an archaic species that is more closely related to Neanderthals than to us, but that nonetheless interbred with some anatomically modern humans as they migrated out of Africa and populated the globe. (For those not familiar with the Denisovans, or the evidence for our interbreeding with them, both Darrel Falk and I have written on this previously, <a href="http://biologos.org/blog/a-geneticists-journey">here</a> and <a href="http://biologos.org/blog/understanding-evolution-neanderthals-denisovans-and-human-speciation">here</a>). Recently, a more detailed understanding of the Denisovan genome <a href="http://www.nature.com/news/new-dna-analysis-shows-ancient-humans-interbred-with-denisovans-1.11331">was published</a>, and nested in the new information is the discovery that the Denisovans share the 46 chromosome set with the same fusion that <a href="http://johnhawks.net/weblog/reviews/denisova/denisova-chromosome-2-2012.html">we have</a>. This strongly supports the hypothesis that the fusion event predates the separation of our species. If we were to represent this on a phylogeny, we can now place this event with more accuracy than before (as before, the phylogeny is not to scale): </p>

<p class="caption-center"><img src="http://biologos.org/uploads/static-content/denisovans_fig_3.jpg" alt="" height="452" width="513"  /></p>
 
<p>Despite this new information, one obvious question remains. Did the Neanderthals also have the 46-pair set? From looking at the phylogeny above, we can see that the most likely answer is that they did, since the fact that the Denisovans had it strongly implies that the last common ancestor of humans and Neanderthals / Denisovans had it as well, and the Neanderthal-Denisovan split comes later. While the Denisovan DNA samples are of high enough quality to make this assessment, we do not yet have Neanderthal DNA of high enough quality to do the same analysis with current methods (though one additional feature of the new work on the Denisovan genome is developing more sensitive DNA sequencing techniques that may resolve this question in the future).</p>

<p>In other words, this fusion seems to be an ancient one, predating our species by several hundred thousand years. Present estimates of the last common ancestor between humans and Neanderthals / Denisovans  range at about 800,000 years ago.</p>

<h3>Implications for understanding our “becoming human”</h3>
<p>The main implication from this work is that it places the fusion event well before the advent of our species. I’ve often chatted informally with Christians about evolution, and at times some have thought that this fusion event was what “started” our species, or made our species unable to interbreed with other groups. Some have even suggested that perhaps the fusion event was what produced the first human (i.e. Adam). </p>

<p>Note that thinking this way suggests a misunderstanding of how chromosome fusions occur and what effect they have on their hosts. A fusion does not precipitate a speciation event, but rather the individual with the fusion remains a part of his or her population, and able to interbreed, even if with reduced fertility. Also, there is no necessary biological effect or change that the fusion produces on the appearance of the organism.  These misunderstandings aside, however,what this new evidence shows is that this fusion event took place long before modern humans arose at around 200,000 years ago. Indeed, the 800,000 years ago date for the last human - Denisovan common ancestor means that this is the most recent date possible for the fusion. While it is an interesting piece of our evolutionary history, it doesn’t seem to have much to do with how we came to acquire the traits that set us apart from, and ultimately outcompete, other similar species.</p> 
<br> </br>]]></content:encoded>
        <pubDate>Thu, 06 Sep 12 13:07:21 -0700</pubDate>
        <dc:creator>Dennis Venema</dc:creator>
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        <title>Series: David Lack and Darwin&apos;s Finches</title>
        <link>http://biologos.org/blog/series/david&#45;lack&#45;and&#45;darwins&#45;finches&#45;series?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/david&#45;lack&#45;and&#45;darwins&#45;finches&#45;series?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Not only are evolution and biblical faith compatible, but committed Christians have been at the forefront of evolutionary science ever since Darwin published On the Origin of Species in 1859. This series looks at David Lack, an ornithologist and devout Christian who contributed greatly to the understanding of Darwin&apos;s finches.</description>
        <content:encoded><![CDATA[<h3>Darwin’s Finches? </h3>

<p>Darwin’s finches are some of the most visible and recognizable symbols of evolution in the world today.  Biology textbooks feature them prominently, and the National Academy of Sciences has enshrined them in the entrance of their headquarters in Washington, DC.  Surely the finches that Darwin collected on the Galápagos islands were a central feature of his evolutionary theory, right?</p>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/Lacks_Finches_NASlobby.jpg" alt="Lobby of the National Academy of Sciences" height="350" width="570"  /></br>Lobby of The National Academies Building.  Courtesy of CPNAS. Photo by Robert Lautman</p>

<p>Actually, the Galápagos finches are never even mentioned in Darwin’s famous work <em>On the Origin of Species</em>.  Nor do they appear in Darwin’s famous notebooks on “Transmutation of Species”, in which he formulated the idea of evolution by natural selection.<sup>1</sup>  Even Darwin’s private diary of his voyage on the HMS <em>Beagle</em> only mentions the Galápagos finches briefly in passing.<sup>2</sup> </p> 

<p>It was only in 1845, in the second edition of <em>The Voyage of the Beagle</em>, that Darwin included a tantalizing sentence about the Galápagos finches:</p>

<blockquote>Seeing this gradation and diversity of structure in one small, intimately related group of birds, one might really fancy that from an original paucity of birds in this archipelago, one species had been taken and modified for different ends.<sup>3</sup>
</blockquote>

<p>However insightful this statement may have been, Darwin never published anything else about the Galápagos finches for the rest of his life.  Nor did he publically present these birds as direct evidence for this theory of evolution.<sup>4</sup> 
</p>

<p>If these finches were so important to Darwin’s evolutionary theory, why did he remain silent about them?  One of his comments in <em>The Voyage of the Beagle</em> provides us with a clue:</p>

<blockquote>Unfortunately most of the specimens of the finch tribe were mingled together; but I have strong reasons to suspect that some of the species of the subgroup Geospiza are confined to separate islands.<sup>5</sup> </blockquote>

<p>When Darwin was exploring the Galápagos himself in 1835, he had not formulated his theory of evolution yet, and thus he did know what data would be necessary to make definitive conclusions about finch evolution.  In particular, he did not keep careful track of which of his specimens came from which islands.   Moreover, as was customary among naturalists at that time, Darwin only collected a small number specimens—he brought home only 31 finches and 64 total birds from the Galápagos.<sup>6</sup>   </p>

<p>Though Darwin sensed that these birds were truly special, he lacked sufficient evidence to reach any specific conclusions about their evolutionary origins.  It would be up to the rest of the scientific community to carry out the necessary empirical research.  Subsequent expeditions in 1868, 1891, 1897, and 1905 brought back thousands of Galápagos finch specimens, but instead of unlocking the mysteries of evolutionary theory, the Galápagos finches became a great enigma.<sup>7</sup>  </p>

<p>A century after Darwin's voyage, scientists still struggled to explain the staggering variety of finches on this tiny, remote archipelago.  By the mid-1930’s, British Museum ornithologist Percy Lowe argued that the finches presented a "biological problem of first class importance", and he told the British Association for the Advancement of Science that the finches displayed a "bewildering diversity, intergradation, and distribution".<sup>8</sup>   Who would be up to the challenge of making sense of such tremendous biological complexity? It was David Lack.</p>
 
<h3>David Lack</h3>

<p class="caption-right"><img src="http://biologos.org/uploads/static-content/David_Lack.png" alt="Ornithologist David Lack" height="291" width="250"  /></br>Ornithologist David Lack</p>

<p>David Lack had an exceptionally keen eye for bird-watching, and he possessed a passion to match it.  By age 15, he had already observed 100 distinct species of birds, and before entering college, authored his first scientific paper.  At Cambridge University in the early 1930’s, Lack was disappointed to find that his zoology professors taught “nothing about evolution, ecology, behavior or genetics, and of course nothing about birds.”<sup>9</sup>  In fact, at that time, there were only two professional ornithologists in all of Britain!</p>

<p>Thus David Lack took it upon himself to create his own learning opportunities.   As an undergraduate, he became the president of the Cambridge Ornithological Club, traveled to Greenland for a bird-watching expedition, and cultivated a relationship with the prominent biologist Julian Huxley (grandson of Thomas Henry Huxley).  Huxley was an inspiring mentor and encouraged Lack to expand his research further by studying tropical birds.<sup>10</sup>  Following this advice, Lack embarked on a research trip to Tanzania in the summer of 1934, but his greatest adventure was yet to come. </p>

<p>In 1937, Lack became fascinated by the scientific mysteries surrounding the Galápagos finches.  But in order to study their behavior, Lack would need to travel to remote islands halfway around the world.   How could he possibly get there?  Once again, Julian Huxley was tremendously supportive and raised funds from two prominent scientific societies to pay for his expedition.  After a long delay, David Lack and five companions finally set off on their journey.</p>

<p>Instead of residing in comfortable quarters aboard a royal naval ship, Lack’s group subsisted on a shoestring budget, traveled on commercial steamers, and stayed with local settlers.  Their experience was definitely not a romantic tale of imperial expedition:</p>

<blockquote>The Galápagos are interesting, but scarcely a residential paradise.  The biological peculiarities are offset by an enervating climate, monotonous scenery, dense thorn scrub, cactus spines, loose sharp lava, food deficiencies, water shortage, black rats, fleas, jiggers, ants, mosquitoes, scorpions, Ecuadorian Indians of doubtful honesty, and dejected, disillusioned European settlers.<sup>11</sup></blockquote>

<p>Whereas Charles Darwin spent only nineteen days on the shores of the Galápagos, Lack and his crew conducted more than five months of meticulous and exhausting study in the harsh climate.  At that time, even the finches themselves provided little solace.  Lack wrote,</p>
	
<blockquote>Darwin’s finches are dull to look at, not only in their orderly ranks in museum trays, but also when they hop about the ground or perch in the trees of the Galápagos, making dull unmusical noises.  Only the variety of their beaks and the number of their species excite attention.<sup>12</sup> <strong></strong></blockquote>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/Lacks_Finches_Cactus_Finch.jpg" alt="Large Cactus Finch–the Galapagos." height="215" width="320"  /></br>Large Cactus Finch on Española Island in the Galápagos Islands</p>

<p>The repetitive tedium requisite for important scientific discoveries is rarely discussed in public, and even today many bright-eyed science students become disillusioned by the painstaking work demanded by their Ph.D. programs.  But one of the things that distinguishes great scientists is their unwavering commitment and tenacity in completing major projects. David Lack's efforts were not in vain: </p>

<p><em>"Despite his personal discomforts (or perhaps because of them), Lack did see something on the Galápagos that no one had ever seen before—natural selection at work among its finches through interspecies competition."</em> <sup>13</sup></p>

<p>When the birds’ breeding season ended in 1939, Lack was ready to return to his home in England.  But the captive finches that he had brought with him fared so badly on the voyage home that he detoured to San Francisco and put them in the care of the California Academy of Sciences.  Turning this mishap into an opportunity, Lack stayed there for five additional months to study the Academy’s enormous  collection of Galápagos finch specimens.<sup>14</sup> </p>

<p>To complete his systematic research, Lack then travelled across the United States to study the Galápagos finch collection housed at the American Museum in New York.<sup>15</sup>   Altogether, Lack examined more than 8000 specimens and specifically measured the length, width, and depth of all their beaks.<sup>16</sup> </p>

<p>Lack’s final obstacle was in getting his research published.  Though he completed his academic manuscript “The Galápagos Finches—A Study in Variation” in 1940, paper shortages during World War II delayed its publication by the California Academy of Sciences until 1945.  Were he only interested in making an original contribution to science, Lack could have stopped here and congratulated himself on a job well-done.  However, his motivation sprung from a deeper source:</p>

<p class="caption-right"><img src="http://biologos.org/uploads/static-content/Lacks14finches_sm.jpg" alt="David Lack's illustration of 14 Finches" height="455" width="300" /> </br>David Lack's drawing of 14 species of Galápagos finches, p. 19 of <em>Darwin’s Finches</em></p>

<p><em>"I did not watch birds primarily for scientific reasons but for sheer enjoyment, and from the age of 15 onward returned day after day in a glow of excitement after seeing a new bird or a new habit."</em> <sup>17</sup></p>

<p>Lack’s joyful fascination with the Galápagos finches inspired him to continue developing his conclusions long after returning from his expedition.  While waiting for his academic paper to be published, he began writing a book that would enable students and the general public to share his excitement about these remarkable birds and the evolutionary processes that shaped them.</p>

<p>First published in 1947, Lack’s book became tremendously influential.  Before this time, biology textbooks had never even mentioned the Galápagos finches.  But after David Lack’s study, the finches became a primary example of evolution by natural selection, specifically <a href="http://en.wikipedia.org/wiki/Adaptive_radiation">adaptive radiation</a>.  Not only did textbooks fully rely on Lack’s findings, they also followed his lead in calling them “Darwin’s finches”, the title of Lack’s famous book.<sup>18</sup> </p>

<h3>Iconic Finches</h3>

<p>What was it about these birds that made them such a prominent symbol of evolution?  As Darwin himself pointed out, the numerous Galápagos finch populations each have distinctive beaks, and he speculated that they could have evolved from an ancestral species that came to the islands.  But a complete picture of finch evolution would have to wait another hundred years, when David Lack arrived.</p>

<p>During his five months on the Galápagos, including both the rainy and dry seasons, Lack observed that these beak differences enable the finches to subsist on different kinds of food:</p>

<blockquote>The beak differences between most of the genera and subgenera of Darwin's finches are clearly correlated with differences in feeding methods.  This is well borne out by the heavy, finch-like beak of the seed-eating <em>Geospiza</em>, the long beak of the flower-probing <em>Cactornis</em>, the somewhat parrot-like beak of the leaf, bud, and fruit-eating <em>Platyspiza</em>, the woodpecker-like beak of the woodboring <em>Catcospiza</em>, and the warbler-like beaks of the insect-eating <em>certhidea</em> and <em>Pinaroloxias</em>.<sup>19</sup>  </blockquote>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/finchbeaks_sm.jpg" alt="" height="270" width="350"  /> </br>Lack's image of beak adaptations from <em>Darwin’s Finches</em></p>



<p>Specializing in such different sources of food enables these finches to live in close proximity without directly competing with each other or driving populations to extinction.  The fact that so many of these closely related finches are able to co-exist is a remarkable fact in itself.  As Lack himself put it, “It is not only the origin, but also the persistence, of new species which require explanation.”<sup>20</sup> </p>

<p>But it is also fascinating to consider how these birds got to be so different in the first place.  How did a finch come to have a beak like a “parrot”, “woodpecker”, or “warbler”?  The answer lies in the distinct characteristics of the Galápagos.  Because the islands are so remote, no actual parrots, woodpeckers, or warblers ever settled on it.  In the absence of these species, the Galápagos finches were able to adopt feeding habits and forms that they would never have taken on a large continent full of other birds competing for food.  The isolation of these islands offered just the right conditions for us to see living examples of adaptive radiation.<sup>21</sup> </p>

<h3>Conclusion</h3>

<p>Considering the immense popularity of the Galápagos finches, it is quite surprising to learn that Charles Darwin himself had so little to say about them.  In fact, it was actually David Lack, one century later, who conducted the critical research that immortalized the finches in biology textbooks and popular lore.  By naming his landmark book <em>Darwin’s Finches</em>,<sup>22</sup>  Lack paid homage to the man whose voyage on the HMS Beagle helped transform the study of natural history.  But at the same time, Lack also obscured the fact that evolutionary biology is an enterprise conducted by a large community of brilliant scholars, not just the product of one man’s efforts.</p>

<p>This tendency to immortalize “great men of science” has also led many people to refer to modern evolutionary theory as <em>Darwinism</em>, despite the fact that it has substantially changed and developed over the past 150 years.  It is important to give credit where credit is due, and if that’s the case, we should seriously reconsider how we refer to the Galapagos finches.  Evolutionary biologist Dolph Schluter, who studied the finches several decades after David Lack, had this to say:</p>

<blockquote>I find Lack's intuition really stunning given how little information he had.  He's my hero actually… They should be called Lack's finches.<sup>23</sup></blockquote>

<p class="intro">In the second part of this series, we’ll explore the fact that David Lack, in addition to being a world-renowned evolutionary biologist, was also a devout Christian.  His study of evolutionary theory did not cause him to lose his faith; in fact, he actually <em>converted</em> to Christianity after completing his Galápagos finch research.</p>

<h3>For Discussion</h3>
<strong>We’ve seen in this essay that the term “Darwin’s finches” is misleading, especially since Charles Darwin himself didn’t make the Galapagos finches famous.  Is it also problematic that people refer to modern evolutionary theory as “Darwinism”?  What misunderstandings can arise by associating an entire field of science with just a single person? Share your thoughts in the comments section below.</strong></p>

<h3>Further Reading</h3>
<ul><li>Grant, Peter R.; Grant, B. Rosemary. <em>How and Why Species Multiply: The Radiation of Darwin's Finches</em>, Princeton University Press, 2008.</li>

<li>Sulloway, Frank J. (Spring 1982), "Darwin and His Finches: The Evolution of a Legend" (<a href="http://www.sulloway.org/Finches.pdf">PDF</a>), <em>Journal of the History of Biology</em> 15 (1): 1–53.</li>

<li>Weiner, Jonathon. <em>The Beak of the Finch: A Story of Evolution in Our Time</em>.  Vintage Books, 1995.</li></ul>

<h3>Notes</h3>
<p class="date">1.  Sulloway, F. (1983). "Darwin and his finches: The evolution of a legend." <em>Journal of the history of biology</em> 15(1): 32. Darwin’s notebooks on transmutation mentioned Galapagos tortoises and mockingbirds, not finches.<br>
2.  Lack, David. <em>Darwin’s Finches</em>.  Cambridge University Press, 1947: 9.  Confirmed by Sulloway (1983), p5. <br>
3.  Darwin, Charles. <em>Journal of researches into the natural history and geology of the countries visited during the voyage of H.M.S. Beagle round the world</em>. London: John Murray. 2d ed. 1845: 379-80.  This edition of the book also contained the drawings of four different finches that have become enshrined in biology textbooks and on the walls of the National Academy of Sciences in Washington, DC.  <br>
4.  Sulloway, p35.  Sulloway points out that the first published evolutionary account of the Galapagos finches was not until 1876, by Osbert Salvin: "On the Avifauna of the Galapagos Archipelago." <em>Trans. Zool. Soc. London</em>, 9:447-51.<br>
5.  Darwin (1845), p395.<br>
6.  Sulloway, p40.<br>
7.  Sulloway, p40.<br>
8.  Larson, E. J. <em>Evolution's Workshop: God and Science on the Galapagos Islands</em>. New York, Basic Books, 2001: 166-67.<br>
9.  Lack, David. (1973) “My life as an amateur ornithologist.” <em>Ibis</em>: 424. <br>
10.  Lack (1973), 425-27.<br>
11.  Lack (1947), p1.<br>
12.  Lack (1947), p11.<br>
13.  Larson, 167-68. <br>
14.  The California Academy of Sciences sponsored an expedition to the Galapagos in 1905-06 and collected nearly 9000 Galapagos finch specimens (Sulloway, p40).<br>
15.  In New York, Lack roomed with the curator of the finch collection—German émigré zoologist Ernst Mayr.  By developing this relationship, Lack had close ties with two of the biggest figures in the neo-Darwinian synthesis, Julian Huxley and Ernst Mayr (Larson, 168).<br>
16.  Larson, p168.<br>
17.  Lack (1973), p424.<br>
18.  Larson, p198.<br>
19.  Lack (1947), p60.<br>
20.  Lack (1947), p158.<br>
21.  See Lack’s concluding chapter on “Adaptive Radiation”, pp146-159 of <em>Darwin’s Finches</em> (1947).<br>
22.  British ornithologist Percy Lowe originally proposed the name “Darwin’s finches” in 1935, but the name did not catch on until Lack used it in his book.  See P.R. Lowe, (1936) "The Finches of the Galapagos in Relation to Darwin's Conception of Species." <em>Ibis</em>, 13th ser., 6:310-321.  (Cited in Larson, p287)<br>
23.  Schluter, in an interview with Edward Larson, 16 March 2000.</p>
]]></content:encoded>
        <pubDate>Tue, 07 Aug 12 04:00:24 -0700</pubDate>
        <dc:creator>Thomas Burnett</dc:creator>
        <!--<dc:date>Aug 07, 2012 04:00</dc:date>-->
      </item>
            <item>
        <title>Series: The Human Fossil Record</title>
        <link>http://biologos.org/blog/series/human&#45;fossil&#45;record?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/series/human&#45;fossil&#45;record?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In this series, James Kidder provides an intriguing study on transitional fossils and the evolutionary history of modern humans.  He begins by discussing the fossil record, explaining how new forms are classified. He then explains the physically distinguishing trait of humankind—bipedalism.  From the discovery of Ardipithecus, the earliest known hominin, to the australopithecines, the most prolific hominin, Kidder focuses on the discovery, the anatomy, and the interpretation of these ancestral remains.</description>
        <content:encoded><![CDATA[<h3>Discovery</h3>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/Eugene_Dubois.jpg" alt="" height="320" width="240"  /></br>Eugene Dubois</p>
It was 1890 and <a href="http://en.wikipedia.org/wiki/Eugene_Dubois">Eugene Dubois</a> was tired.  He had searched everywhere in Sumatra for the human ancestors that were supposed to be there—at least according to the theories of his mentor, famed German naturalist Ernst Haeckel.  Instead, he had found only heat and malaria.</p>

<p>13 years before, in 1877, Dubois had arrived in Amsterdam to study medicine, but always harboring a desire to study the ancestry of modern humans.  So, after four years at the University there, he accepted an invitation to go to the University of Utrecht to study comparative anatomy and devote himself to the latest thinking about the origins of the human species.  It was during his time at Utrecht (from 1881 to 1887) that Dubois became enamored of Haeckel’s views on human origins, which differed from those of Darwin.  While Darwin argued that humans had evolved in Africa, the region in which our closest living relatives—the chimpanzees and gorillas—still live, Haeckel believed that the origins of humanity lay in East Asia.  This was so, he believed, because of his own observations of gibbons that walk bipedally when on the ground. </p>

<p>Haeckel also believed that there had once been a large landmass called Lemuria between the continents of Africa and Asia.  In his view, Lemuria  had since become submerged, leaving the modern islands of Madagascar and the East Indies as its only remains.  The idea of submerged continents was not unusual for the late 19th-century, as people struggled to understand the character of biological diversity present in the world and why there were such striking similarities between animals that were geographically dispersed.  The geographical distribution of marsupial fossils in South America and Australia is an example of this sort of problem, and one that was not solved until the second half of the 20th century when continental drift reconstructions suggested that ancient marsupials had used Antarctica as a conduit between the other two continents.  Not only did such theories make sense of modern distributions, they were confirmed with later discoveries of marsupial fossils in Antarctica.</p>

<p>In any case, in 1888 Dubois joined the army and set out for the Dutch East Indies to pursue his ideas.  For the next two years, he would comb Sumatra attempting to locate the hominin remains that Haeckel promised would be there. In hindsight, what Dubois was attempting was something that had never been done before: discovery of hominin material through the tools of archaeological excavation.  Up to this point, all of the human fossils had been found on the surface, eroding out of the side of a bank, or as a result of farming.  It had not occurred to anyone to go looking for human ancestors.  </p>

<p>Now, with his supply of prison workers dwindling due to desertion and fever, he had almost run out of options and was on the verge of failure.  Using almost all of his remaining resources, he decided to abandon his excavations on Sumatra and turn to the nearby island of Java.  Emboldened by the fact that early modern human fossils had been discovered there (at Wadjak), he arrived and settled in at Trinil, on the banks of the Solo River, in 1890. </p>

<p class="caption-right"><img src="http://biologos.org/uploads/static-content/kidder_10_1_1.jpg" alt="" height="377" width="318"  /><br />Figure 1: Dubois' <em>Pithecanthropus erectus</em></p>

<p>The very next year, Dubois’ long-standing efforts were finally rewarded, first with the discovery of a skullcap (calvaria) of a hominin cranium, and then with an intact femur (Figure 1).  Judging by what he knew of cranial anatomy, Dubois estimated that the skull would have been approximately 900 cubic centimeters (cc) in volume, placing it below even the lowest threshold of modern humans.  Further, he noticed that it was not like modern humans in shape, being too long and low. He concluded that it showed “evidence of a form intermediate between man and the anthropoid apes” (Dubois, 1896). Dubois envisioned a sequence of forms in which the gibbon gave rise to a form of chimpanzee called <em>Anthropopithecus sivalensis</em>, which then gave rise to the form represented by the Trinil remains, after which <em>Homo sapiens</em> arose (Turner, 1895).  </p>

<p>Dubois spent the next twenty years on the road with his find, trying to drum up support for its place in human prehistory.  As with Raymond Dart’s discovery of the first australopithecine thirty-three years later, Dubois did not receive a warm reception.  Most critics simply said that he had gotten it wrong and that the femur did not belong to the same individual as the obviously-primitive skull cap. Some of the criticism Dubois suffered could have been mitigated had he been more open to sharing the Trinil materials; but, instead, he allowed very little access to the bones, so that very few people knew exactly what they looked like. Adding to Dubois’s credibility problems was the 1911 “discovery” of Piltdown.  This intentional hoax turned the paleoanthropology world on its head for forty years, sending researchers down innumerable rabbit holes.  As I noted in a <a href="http://biologos.org/blog/the-dispersal-of-the-australopithecines">previous post</a>, the Piltdown remains made all of the other hominin finds appear too “ape-like” to be on the road to humanity and informed many opinions about finds such as those from Trinil.  </p>

<p>On the other hand, some critics of Dubois’ new hominin claim were vicious, and questioned both his academic abilities and his judgment (Shipman & Storm, 2002)—in addition to the interpretation of the find itself. It was in reference to Dubois’ work that the term “Missing Link” was first used with reference to a particular human fossil, originating with Charles Lyell (1863) and describing palaeontological gaps.  And ironically, it was in one of the most stinging criticisms of Dubois’ work that the name that would eventually stick was first used: “<em>Homo erectus</em>.” Eventually, many other finds in the same general area and across Southeast Asia demonstrated that what Dubois had found <em>was</em> a real, previously-unknown hominin form, and the first to colonize the Asian continent and the islands leading off towards Oceania. </p>

<h3><em>Homo erectus</em> across South East Asia: </h3>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/kidder_10_1_2.jpg" alt="" height="180" width="215"  /><br />Figure 2: Sangiran 17</p>

<h4><em>Sangiran</em></h4>

<p>The earliest point at which <em>Homo erectus</em> appears to have begun to colonize the greater East Asian region is around 1.8 million years ago, represented first by the partial child’s skull found at the site of Modjokerto, and then, at around 1.66 million years ago, at the site of Sangiran, in Trinil, where Dubois had made his landmark discovery.  This site was rich, yielding the remains of many crania, perhaps best represented by Sangiran 17 (Figure 2), an almost complete skull.  </p>

<p>The material from the Sangiran site is very diverse morphologically, with some crania having capacities of as little as 700 to 800 cc, and other, larger heads with volumes in the range of 1000 cc. As with the late <em>Homo ergaster</em> finds from Africa, the remains from Sangiran yielded crania that were still widest at their bases, possessing large brow ridges. Some have thick cranial bones and are very robust (Sangiran 4), while others are very gracile (Sangiran 31).  What this variation means is not clear, but most workers believe it represents a very diverse diachronic population (that is, one group living and moving around over a long period) rather than separate species inhabiting the area.  The Sangiran site yielded fossil material in an almost continuous succession from approximately 1.66 million years ago to less than 800,000 years ago.  </p>

<p>Because the area of the excavations—the Sangiran Dome—is a volcanic deposit, the layers have been securely dated by the <a href="http://en.wikipedia.org/wiki/40Ar/39Ar"><sup>40</sup>Ar/<sup>39</sup>Ar method</a>, although questions remain about the historical sequence and distribution of other animals that lived there through the ages (its <a href="http://en.wikipedia.org/wiki/Faunal_succession">faunal succession</a>).  The problem is that many of the fossils were not found in context, and relating them directly to the stratigraphy is tenuous.  Despite this, most workers are comfortable with the earliest hominins in the region being at least 1.5 million years old.  </p>

<p>One of the things hampering workers in this region is the comparative paucity of recovered stone tools.  Those that have been found suggest a technological stage similar to the late Oldowan design, equivalent to that being created by the <em>Homo ergaster</em> populations inhabiting the area of Dmanisi and East Africa.  Unfortunately, none of the tools have been associated with the hominins directly so it is not exactly clear who made them.  </p>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/kidder_10_1_3.jpg" alt="" height="343" width="228"  /><br />Figure 3: Sambungmacan 3</p>

<h4><em>Sambungmacan</em></h4>

<p>Another major find from the area where Dubois brought <em>Homo erectus</em> to light is the cranium from the site of Sambungmachan.  This skull was reportedly found in 1977 but was then illegally sold to the antiquities market, where is spent considerable time in different collections before being “rediscovered” in 1998—in a New York nature curio shop called Maxilla and Mandible, Inc. (Delson et al., 2001).  This was an almost-complete calvaria (Figure 3), with only part of the base missing.  It is equivalent in size to the fossils from Sangiran, with a cranial capacity of around 1000 cc.  It has a large brow ridge extending all of the way across the top of the eyes, a long, low cranium with a sloping forehead and a maximum width near the cranial base—all features that are also characteristic of the late African <em>H. ergaster</em> and Sangiran crania.  Although we will never know exactly how old this cranium is, its morphology is consistent with that of the material from Sangiran.  </p>

<p class="caption-right"><img src="http://biologos.org/uploads/static-content/kidder_10_1_4.jpg" alt="" height="185" width="233"  /><br />Figure 4: Ngandong 6</p>

<h4><em>Ngandong</em></h4>

<p>Later in time, but also located on the Solo River, is the site of Ngandong, excavated by Oppenoorth in the early 1930s.  At this site, fourteen calvaria have been discovered, all of which show advanced <em>Homo erectus</em> characteristics: long and low in shape, with thick-bones and a distinctive brow-ridge. (Figure 4). As with the other Indonesian finds, dating the Ngandong material has been problematic.  The deposits at the site were originally thought to be around 100,000 years old, but this interpretation was turned on its head in 1996, when Swisher and colleagues claimed that the deposits were no older than between 27,000 and 53,000 years old (Swisher et al., 1996).  These age estimations were made on the associated fauna, however, and as Rainer Grün and the late Alan Thorne pointed out, the faunal material does not match the skulls either in color or in texture and is likely not from the same time.  Recently, Swisher and colleagues revisited the dating of the site and derived internally-consistent dates of at least 143,000 years before the present (Indriati et al., 2011).  As with the Trinil remains, however, there are no associated stone tools.  </p>

<h3><em>Homo erectus</em> in China</h3>

<p>The Chinese <em>Homo erectus</em> material is very widely scattered and working in the region has presented many difficulties for researchers in terms of transport, language barriers and funding.  Consequently, we know less about this region and its previous inhabitants than we do about most other areas of the Old World.  Although there are between ten and fifteen sites that have yielded <em>Homo erectus</em> material, I will only touch on the most important ones.  </p>

<h4><em>Lantian</em>:</h4>

<p class="caption-right"><img src="http://biologos.org/uploads/static-content/kidder_10_1_5.jpg" alt="" height="164" width="192"  /><br />Figure 5: Lantian</p>

<p>In the early 1960s, a cranium and mandible were found in the cave of Lantian, Shaanxi province, whose characteristics matched other remains from China designated as <em>Homo erectus</em>.  Paleomagnetic dating has yielded a date no earlier than 1.15 million years ago for the skull, with the consensus being that it is around 800,000 years old.  A date of approximately 650,000 years before the present was derived for the mandible. The cranium is heavily encrusted and suffered from postmortem deformation (Figure 5).  When reconstituted, it was found to have a capacity of around 780 cc (low for <em>Homo erectus</em>) and the bones on the sides of the head are the thickest yet recorded. At this site some flake tools, mammal remains, and an ash deposit were all recovered, suggesting hunting and control of fire.  </p>

<p class="caption-left"><img src="http://biologos.org/uploads/static-content/kidder_10_1_6.jpg" alt="" height="144" width="204"  /><br />Figure 5: Hexian</p>

<h4><em>Hexian</em></h4>
	
<p>Another almost-complete calvaria was found at Longtandong cave in the province of Hé Xiàn, dated to between 400,000 and 500,000 years ago.  This find exemplifies typical <em>Homo erectus</em> in many ways in that it is long and low, with heavy muscle markings toward the base and the rear of the skull (Figure 6).  The cranial capacity is around 1000 cc, a third-again greater than that of the Lantian calvaria.  Its cranial shape is very similar to those found in Southeast Asia, suggesting that it straddles the Southeast Asian and Chinese boundary.</p>

<p>While both Lantian and Hexian were significant finds, another site in China boasted the single largest collection of <em>Homo erectus</em> fossils ever found at one site, as well as presenting one of the greatest mysteries in paleoanthropology.  Tomorrow, in the conclusion of our look at <em>Homo erectus</em> in Asia, we’ll peer into the Zhoukoudian caves and consider how this species fits into the lineage of man.
</p>]]></content:encoded>
        <pubDate>Sun, 29 Jul 12 04:59:44 -0700</pubDate>
        <dc:creator>James Kidder</dc:creator>
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        <title>What evidence do we have for evolution besides fossils and genes?</title>
        <link>http://biologos.org/questions/what&#45;evidence&#45;do&#45;we&#45;have&#45;for&#45;evolution&#45;besides&#45;fossils&#45;and&#45;genes?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/questions/what&#45;evidence&#45;do&#45;we&#45;have&#45;for&#45;evolution&#45;besides&#45;fossils&#45;and&#45;genes?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Scientists have found multiple lines of evidence for evolution, not just one or two.  These types of evidence are independent of each other, coming from sources as different as ancient fossils and modern genetics labs. Evidence also comes from comparing the anatomy of creatures living today.  All creatures with four limbs (whether mammals, birds, or reptiles) have the same bone structure in each limb, pointing to their descent from a common ancestor. More evidence comes from biogeography.  Isolated islands are missing common species found on the mainland, but are filled with many unique species that can be related by a common ancestor. Finally, evidence comes from embryonic development.  As an embryo of a mammal grows, its heart develops through stages similar to fish, amphibians, and reptiles.  God’s creation declares the history of life in many different ways. All these ways are pointing to a consistent picture of God creating through evolution.</description>
        <content:encoded><![CDATA[<em>Coming soon.</em>]]></content:encoded>
        <pubDate>Fri, 13 Jul 12 13:25:46 -0700</pubDate>
        <dc:creator></dc:creator>
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        <title>The Fossil Record</title>
        <link>http://biologos.org/blog/the&#45;fossil&#45;record?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/the&#45;fossil&#45;record?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>There are two opposite errors which need to be countered about the fossil record: 1) that it is so incomplete as to be of no value in interpreting patterns and trends in the history of life, and 2) that it is so good that we should expect a relatively complete record of the details of evolutionary transitions within all or most lineages.</description>
        <content:encoded><![CDATA[<h3>The Fossil Record:  Is there enough evidence ?</h3>

<p>There are two opposite errors which need to be countered about the fossil record: 1) that it is so incomplete as to be of no value in interpreting patterns and trends in the history of life, and 2) that it is so good that we should expect a relatively complete record of the details of evolutionary transitions within all or most lineages.</p>

<p>What then is the quality of the fossil record?  It can be confidently stated that only a very small fraction of the species that once lived on Earth have been preserved in the rock record and subsequently discovered and described by <a onmouseover="toggle_visibility('pop1');" onmouseout="toggle_visibility('pop1');">science</a>.</p>

<div class="see-also" id="pop1" style="display:none;">A more expanded discussion of this topic can be found in Miller, K.B., 2003, “Common descent, transitional forms, and the fossil record,” IN, K.B. Miller (ed.), <em>Perspectives on an Evolving Crreation</em>, Wm. B. Eerdmans, Grand Rapids.</div>

<p>There is an entire field of scientific research referred to as "taphonomy" -- literally, "the study of death."   Taphonomic research includes investigating those processes active from the time of death of an organism until its final burial by sediment.  These processes include decomposition, scavenging, mechanical destruction, transportation, and chemical dissolution and alteration.  The ways in which the remains of organisms are subsequently mechanically and chemically altered after burial are also examined -- including the various processes of fossilization.  Burial and "fossilization" of an organism's remains in no way guarantees its ultimate preservation as a fossil.  Processes such as dissolution and recrystallization can remove all record of fossils from the rock.  What we collect as fossils are thus the "lucky" organisms that have avoided the wide spectrum of destructive pre- and post-depositional processes arrayed against them.</p>

<p>Soft-bodied organisms, and organisms with non-mineralized skeletons have very little chance of preservation under most environmental conditions.   Until the Cambrian nearly all organisms were soft-bodied, and even today the majority of species in marine communities are soft-bodied.  The discovery of new soft-bodied fossil localities is always met with great enthusiasm.  These localities typically turn up new species with unusual morphologies, and new higher taxa can be erected on the basis of a few specimens!  Such localities are also erratically and widely spaced geographically and in geologic time.</p>

<p>Even those organisms with preservable hard parts are unlikely to be preserved under "normal" conditions.  Studies of the fate of clam shells in shallow coastal waters reveal that shells are rapidly destroyed by scavenging, boring, chemical dissolution and breakage.  Occasional burial during major storm events is one process that favors the incorporation of shells into the sedimentary record, and their ultimate preservation as fossils.  Getting terrestrial vertebrate material into the fossil record is even more difficult.  The terrestrial environment is a very destructive one: with decomposition and scavenging together with physical and chemical destruction by weathering.</p>

<p>The potential for fossil preservation varies dramatically from environment to environment.  Preservation is enhanced under conditions that limit destructive physical and biological processes.  Thus marine and fresh water environments with low oxygen levels, high salinities, or relatively high rates of sediment deposition favor preservation.  Similarly, in some environments biochemical conditions can favor the early mineralization of skeletons and even soft tissues by a variety of compounds (eg. carbonate, silica, pyrite, and phosphate).  The likelihood of preservation is thus highly variable.  As a result, the fossil record is biased toward sampling the biota of certain types of environments, and against sampling the biota of others.</p>

<p>In addition to these preservational biases, the erosion, deformation and metamorphism of originally fossiliferous sedimentary rock have eliminated significant portions of the fossil record over geologic time.  Furthermore, much of the fossil-bearing sedimentary record is hidden in the subsurface, or located in poorly accessible or little studied geographic areas.  For these reasons, of those once-living species actually preserved in the fossil record, only a small portion have been discovered and described by science.  However, there is also the promise of continued new and important discovery.</p>

<p>The forces arrayed against fossil preservation also guarantee that the earliest fossils known for a given animal group will always date to some time after that group first evolved.  The fossil record always provides only minimum ages for the first appearance of organisms.</p>

<p>Because of the biases of the fossil record, the most abundant and geographically widespread species of hardpart-bearing organisms would tend to be best represented.  Also, short-lived species that belonged to rapidly evolving lines of descent are less likely to be preserved than long-lived stable species.  Because evolutionary change is probably most rapid within small isolated populations, a detailed species-by-species record of such evolutionary transitions is unlikely to be preserved.  Furthermore, capturing such evolutionary events in the fossil record requires the fortuitous sampling of the particular geographic locality where the changes occurred.</p>    

<p>Using the model of a branching tree of life, the expectation is for the preservation of isolated branches on an originally very bushy evolutionary tree.  A few of these branches (lines of descent) would be fairly complete, while most are reconstructed with only very fragmentary evidence.  As a result, the large-scale patterns of evolutionary history can generally be better discerned than the population-by-population or species-by-species transitions.  Evolutionary trends over longer periods of time and across greater anatomical transitions can be followed by reconstructing the sequences in which anatomical features were acquired within an evolving branch of the tree of life.</p>]]></content:encoded>
        <pubDate>Fri, 13 Jul 12 05:00:15 -0700</pubDate>
        <dc:creator>Keith Miller</dc:creator>
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        <title>What scientific evidence do we have about the first humans?</title>
        <link>http://biologos.org/questions/what&#45;scientific&#45;evidence&#45;do&#45;we&#45;have&#45;about&#45;the&#45;first&#45;humans?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/questions/what&#45;scientific&#45;evidence&#45;do&#45;we&#45;have&#45;about&#45;the&#45;first&#45;humans?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>In recent decades, scientists have discovered more about the beginnings of humanity.  The fossil record shows a gradual transition over 5 million years ago from chimpanzee&#45;size creatures to hominids with larger brains who walked on two legs.   Later hominids used fire and stone tools and had brains as large as modern humans.  Fossils of homo sapiens in east Africa date back nearly 200,000 years.  Humans developed hearths for fire, stone points for spears and arrows, and cave paintings by 30,000 years ago.   By 10,000 years ago, humans had spread throughout the globe.   Genetic studies support the same picture.  Humans share more DNA with chimpanzees than with any other animal, suggesting that humans and chimps share a relatively recent common ancestor.  Also, the same defective genes appear in both humans and chimps, at the same locations in the genome—an observation difficult to explain except by common ancestry. Genetics also tells us that the human population today descended from more than two people. Evolution happens not to individuals but to populations, and the amount of genetic diversity in the gene pool today suggests that the human population was never smaller than several thousand individuals.  Yet all humans, of all races, are descended from this group.  Humanity is one family.</description>
        <content:encoded><![CDATA[<em>Coming Soon</em>]]></content:encoded>
        <pubDate>Thu, 12 Jul 12 14:34:24 -0700</pubDate>
        <dc:creator></dc:creator>
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        <title>For the Love of the World: John Stott and His Passion for Creation</title>
        <link>http://biologos.org/blog/for&#45;the&#45;love&#45;of&#45;the&#45;world&#45;john&#45;stott&#45;and&#45;his&#45;passion&#45;for&#45;creation?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/for&#45;the&#45;love&#45;of&#45;the&#45;world&#45;john&#45;stott&#45;and&#45;his&#45;passion&#45;for&#45;creation?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>Some criticized John for his theistic evolutionary position and even his appreciation for Darwin. But Stott saw no contradiction between his own commitment to the authority of Scripture and his openness to God’s use of evolution in His creative process.</description>
        <content:encoded><![CDATA[<p>A few months ago a very important looking letter showed up in my mailbox. Written with the glorious flare that only an expensive fountain pen can produce, my name and address were written brightly in perfect cursive, and the return address displayed the formidable name, title and address of a London barrister.  Ripping open the letter, I found a neatly printed check for £1000 inside, along with a note informing me that the former Rev. Dr. John R.W. Stott had left this money to me in his will, as it was his wish that each of his former study assistants be given a posthumous gift of gratitude for our service to him.</p>

<p>It didn’t seem right to deposit such a gift unreflectively into our bank account, allowing it to be swallowed up anonymously into our daily expense fund. My wife Sarah and I talked about a symbolic way we might use the money to honor John’s mark of grace on both of our lives. We very quickly settled on our decision: an SLR camera with a fine telephoto lens.</p>

<p>Many people remember John Stott for his books and preaching, but fewer remember him for his love of creation, his ornithological passion, and his knack for bird photography. On the very first day of my job working as his study assistant, I found on my desk a brand new set of binoculars and a copy of “Birds of Europe,” by Lars Johnson (the definitive guide). No study assistant was to work for John unless we shared in his love for birds, or at least could ably feign it. I soon discovered how seriously he took this avocation. In London he would stop whatever meeting we might be rushing off to in order to catch a look at a passing Kestrel. At his writing cottage in Southwest Wales we would begin every Sunday morning at Pickleridge Pools to see the Loons and Cormorants. Wherever we traveled, whether Uganda, India or Hungary, we would always schedule an extra few days to visit the local bird life with the accompaniment of a local expert.</p>

<p><img src="http://biologos.org/uploads/static-content/stott_book_cover.jpg" alt="" height="363" width="240" style="float:right; margin:10px 0px 10px 10px;" />But I also discovered that his love for birds was an extension of his love for creation and for its Creator. Uncle John took seriously the Psalmist’s words, “Great are the works of the Lord, studied by all who delight in them” (Ps 111:2). Taking “the works of the Lord” to include both God’s work of creation and redemption, he would often say that nature study and Bible study must go hand in hand. He was ahead of his time in calling Christians to have a more robust doctrine of and appreciation for Creation, and he viewed having at least one pursuit in the realm of natural history as an outflow of Christian discipleship. Indeed, it is striking that in his very last book, <em>The Radical Disciple</em>, in which he reflects on “some neglected aspects of our calling,” he includes “Creation Care” among Christian responsibilities like Christlikeness and Dependence.<sup>1</sup> And as remarkable as his accomplishments were in authoring such influential books as <em>Basic Christianity</em> and <em>The Cross of Christ</em>, it was his much less well known book <em>The Birds Our Teachers</em>,<sup>2</sup> which includes over 150 of his own photographs, that he would most often pull out to show visiting guests.</p>

<p>Some criticized John for his theistic evolutionary position and even his appreciation for Darwin, who John viewed as a man genuinely conflicted with how his discoveries could be integrated with his personal Christian faith. But Stott saw no contradiction between his own commitment to the authority of Scripture and his openness to God’s use of evolution in His creative process. He was of course unequivocal in his assertion that “One cannot be a Christian and not believe in creation.”<sup>3</sup>  Yet believing that Genesis 1 speaks more to the “why” rather than the “how” of creation, John also affirmed, “Those Christians who believe in evolution…mean that the huge variety of animal and vegetable forms can best be accounted for not by the independent creation of each, but by a gradual process of ‘descent with modification’, whether or not Darwin’s ‘natural selection’ is the best explanation of its mechanisms.”<sup>4</sup>  If anything, for John the possibility of God’s implementation of the evolutionary process was a striking example of the way God does not simply create but is also actively involved in sustaining and ordering His world. </p>

<p>So on the date of John’s birthday, April 27, we used his gift and bought our new camera. Laying it out on the table, I realized I needed a spacious and protective carrying case to hold the various lenses and equipment. I climbed up into the attic and retrieved John’s old camera bag, which he passed on to me after he had his second embolism and could no longer see well enough to take photographs. As I opened it up and examined the various lenses and mounts inside, now too old to adapt to any of the modern equipment, I realized I was holding in my hands the tools of one man’s passion and an expression of his love for his triune creator God. Deeply moved, I picked up my own camera, a new tool for my own stewardship of created life, and headed outside.</p>

<h3>Notes</h3>
<p class="date">1. John Stott, <em>The Radical Disciple</em> (IVP, 2010).<br />
2. John Stott, <em>The Birds Our Teachers: Biblical Lessons from a lifelong bird-watcher</em> (Angus Hudson, 1999).<br />
3. Ibid.<br />
4. John Stott, <em>People Our Teachers</em> (Angus Hudson, 2002), 110.</p>
]]></content:encoded>
        <pubDate>Sun, 03 Jun 12 12:20:38 -0700</pubDate>
        <dc:creator>Corey Widmer</dc:creator>
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        <title>Letting God Out of the Box</title>
        <link>http://biologos.org/blog/letting&#45;god&#45;out&#45;of&#45;the&#45;box?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/letting&#45;god&#45;out&#45;of&#45;the&#45;box?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>I found myself in a very awkward situation. On the one hand I was a follower of Jesus Christ who loved the Bible, knew that it was God’s Word, and, therefore, not full of lies. However, I also was someone who had loved science for many years and was planning on pursuing a career in research...</description>
        <content:encoded><![CDATA[<p>Having grown up in a Christian home, I was impressed with the Bible’s significance at an early age.  I can still picture my mother cozied up every morning on the right end of the couch with her afghan and coffee, reading from the gold-trimmed pages of her brown, leather-bound bible.  I can also repeat one of her favorite responses when confronted with the barrage of questions children never seem to run out of: “What does the Bible say?” she would often ask.  But as I got older and moved farther and farther west on my own, I began to see God’s Word as much more than a life-resource book. The Bible became precious to me as I realized just how precious I was to God, despite my wanderings from the proverbial straight and narrow path.  </p>

<p>Realizing such a beautiful thing made me desire God even more, and I began regularly attending the church a friend had introduced me to early on in my relocation to San Diego.  The pastor’s messages were funny, relevant, convicting, and oftentimes full of scientific facts used to illustrate God’s majestic creation.  As a college student pursuing a degree in biology, it seemed to be the perfect church.  One Sunday the topic of evolution came up and I listened as he proceeded to explain how the “theory” was not only utterly ridiculous (it should really be called a “hypothesis”), but that it was incompatible with the Bible.  Because the last biology class I took was in high school, I couldn’t quite recall what I learned about evolution; in my new-found zeal for righteousness, I figured doubting the theory was somehow pleasing God more.</p>

<p>Around this time I also began listening to a lot of Christian talk radio, and one of my favorite programs was a call-in show where listeners could join the discussion on that day’s topic.  Every now and again evolution happened to be the topic, and whenever people would call in to defend it, the host always seemed to win the debate by countering every point they tried to make with a logical and persuasive argument that was also consistent with Scripture.   Just as with my pastor, the radio host appeared to have done a thorough investigation of the matter.  Because they were both Christians in leadership positions (and because they exuded absolute surety on the matter), I believed them when they claimed that, not only was there zero evidence for evolution, but that believing it was not consistent with the Christian faith.  But the talk-show host didn’t stop there.  According to him, evolution was not only a fraud, but a belief system that leads to suicide, Nazism and atheism.  Furthermore, because it was being taught in public schools, evolution was responsible for the moral decline in our country.  To be fair, this talk show host wasn’t alone.  Nearly every program (on all three radio stations I listened to) mentioned similar sentiments about evolution at one time or another.  I quickly got the sense that all Christians were in agreement on this issue, and since I wanted to be a good Christian, I determined that I was, too.</p>

<p>During this period I found myself in a very awkward situation.  On the one hand I was a follower of Jesus Christ who loved the Bible, knew that it was God’s Word, and, therefore, knew that it was not full of lies.  However, I also was someone who had loved science for many years and was planning on pursuing a career in research.  Given all that I had learned about the incompatibility of the two worldviews, it seemed that I would have to choose.  Or did I?  One day on my commute home I turned on my usual AM radio station and heard something quite unexpected – the voice of Ben Stein.  Intrigued as to why the teacher from <em>Ferris Bueller’s Day Off</em> was on Christian radio, I continued listening as the host and Mr. Stein discussed Intelligent Design and the new documentary that highlighted it, <em>Expelled! No Intelligence Allowed</em>.   Loving movies and having never heard of ID, I saw it as soon as it came out.  The film did not disappoint: I left excited and relieved that an alternative to evolution had arrived—one that also seemed to be compatible with my faith.  </p>

<p>By this time I had graduated from college and decided to pursue a career in education rather than research.  I struggled immensely as I pondered what I would do when it came time to teach evolution, but considering that I had been offered a job amidst rumors of hiring freezes, I didn’t want to do anything that would jeopardize my position.  During the week before the official start of the school year, there were several faculty meetings and department planning sessions.  I was pleased to find out that I was going to be sharing a classroom with another Christian teacher.  However, when it came time for the evolution unit, I was confused at the enthusiasm this same teacher had for the topic.  I listened in as she taught her students that evolution makes the most sense of homologous structures, the phylogenetics of cytochrome c, and the apparent fusion of two chromosomes to make our chromosome 2  (accounting for the fact that we have one fewer pair than chimpanzees)—and that these features pointed to a common origin of all species, including our own.  I couldn’t help but wonder, “What was going on here?!  I thought she was a Christian, how could she stand up there and twist the truth?” </p>

<p>I figured that she must be one of those people who call themselves Christians, but really aren’t.  </p>

<p>But something else concerned me more than my fellow teacher’s apparent divergence from the faith.  Although I remember learning about homologous structures and the phylogenetics of cytochrome c, I never realized their significance like I did at that moment.  Furthermore, the fusion of chromosomes our ancestors shared with those of chimpanzees was previously unknown to me.  Taken together, these three bits of information were admittedly breathtaking; but even so, I wasn’t ready to accept them as anything more than peculiarities.    </p>

<p>As my first year of teaching came to a close, I accepted an invitation to attend an info night for Point Loma Nazarene’s Master’s in biology program, designed for working teachers.  I was certainly excited at the prospect of getting a graduate degree in biology rather than in education, but I was most excited to have my first taste of Christian education.  During the Q & A period, however, that excitement was quickly turned to disappointment: I discovered that the faculty’s position on evolution and natural selection was one of acceptance.  I thought to myself, “This must be one of those colleges that say they’re Christian, but really aren’t.”  Despite this somewhat bitter conclusion, I went ahead with the application process anyway, and within a few weeks was sitting in my first graduate class.  SEASAND was a summer workshop for teachers which we could use as an elective and that year’s topic just happened to be evolutionary developmental biology.  Suffice it to say that I was a little worried at what I was getting myself into.   </p>

<p>For the first week and a half I experienced serious internal conflicts trying to come up with rational alternative explanations to the apparent common descent of organisms such as fruit flies, mice, and humans as outlined in our textbook, <em>Endless Forms Most Beautiful</em>.  I also took one of the professors up on his offer to answer our questions if we were having trouble with the course content as it pertained to our faith—an offer that caused me even more cognitive dissonance:  here was a person who claimed to be a Christian and yet he was completely comfortable with saying that Genesis was not a literal creation account.  Combining the terms “Christian” and “a non-literal interpretation of the Bible” was just not compatible with my understanding of things.  I felt so lost that I did the one thing I should have been doing a lot more of from the start of the class – I prayed.  </p>

<p>Through my times in prayer and reflection I discovered many things.  For one, I learned that I had been putting God in a box: I was making him fit into my ideas of how he <em>should</em> create life, as if I knew the correct way it should have been done.  I also learned that I had been awfully judgmental in mentally accusing the teacher I shared my classroom with, the people at Point Loma’s info night, and my SEASAND professors of only <em>pretending</em> to be “real Christians.”  I even judged God himself by thinking that (if I were to admit that evolution were true) he had chosen a hideous way to bring about life as we know it. Finally, I discovered that a major barrier to my accepting evolution was that  I didn’t want to say  “I was wrong” to the many people  I’d argued with about it; I would rather suppress the truth than swallow my pride.  Having realized all of this, it was only a matter of days before I decided to stop ignoring the mountain of evidence being laid out in favor of evolution.  As ridiculous as it may sound, I felt a weight lifted off my shoulders and a peace settle into my soul.</p>

<p>It’s now been nearly three years since that transitional summer, and to all those who claim a belief in evolution leads to atheism or any of those other unfortunate fates, I am here to say that you are greatly mistaken.  I still love Jesus, I still love the Bible, I still attend a conservative evangelical church, and I even still listen to Christian talk radio.  But the best part is that I am not an anomaly: there is an incredible group of Christians out there who accept God as creator and evolution as his process, and I have the privilege of working and collaborating with some of them every single day.  </p>
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        <pubDate>Fri, 20 Apr 12 01:11:14 -0700</pubDate>
        <dc:creator>Lisa Jeanguenin</dc:creator>
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        <title>Scientists Tell Their Stories: David Wilkinson</title>
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        <guid>http://biologos.org/blog/scientists&#45;tell&#45;their&#45;stories&#45;david&#45;wilkinson?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>&quot;If I have one criticism of my fellow theologians from time to time, it’s that they’re often stuck in the physics of the 19th century rather than the 20th and 21st centuries.&quot;</description>
        <content:encoded><![CDATA[<p align="center"><iframe src="http://player.vimeo.com/video/39216950?title=0&amp;byline=0&amp;portrait=0" width="533" height="302" frameborder="0" webkitAllowFullScreen mozallowfullscreen allowFullScreen></iframe></p>

<h3>Transcript</h3>

<p>My name is David Wilkinson, I teach at Durham University in the department of theology, I used to be a physicist and I still am fascinated by science and theology. I became a Christian at the age of seventeen, and at that point Christian faith was very new and exciting to me. I’d also decided to do a physics degree at university; now I’m not that type of person who built a telescope at the age of four or anything of that sort. I did physics at university, I have to admit, because I was quite good at mathematics and therefore I knew I wouldn’t have to work very hard doing physics. I could spend time doing real things at university, such as cricket and other things-- typically British of course.</p>

<p>However what happened for me as I began to study physics at Durham University was that my new-found faith and this new area of science began to enrich each other, and Kepler of course once said that science is thinking God’s thoughts after him. And I think what was happening in hindsight was that as I was encountering the God of creation in and through Jesus, so what God had created became more and more valuable, more and more interesting to me, just as when our children brought back drawings and paintings from their school class. They weren’t great pieces of art but they were put on our kitchen walls because we knew the person who had created them, and because I was being introduced to the God of creation, so the science itself began to live for me.</p>

<p>Another thing was that the science at university level, particularly as one starts to explore relativity and quantum theory, cosmology, is that as John Polkinghorne would say, “It breaks the tyranny of common sense.” This isn’t a mechanistic world of Isaac Newton and those theologians who think that every question is wrapped up. This is an exciting open world of exploration and questions, of freedom both for God to work and the universe to explore. And this became more and more fascinating to me as time went on. My faith enriched my science, and my science enriched my faith. Now that wasn’t always a process where there were easy questions to answer; there were often difficult questions. But I have to say that continually, the science and the faith have gone together and have enriched each other. </p>

<p>My own particular interest then over the years has been how one takes the issues of science and faith and communicates them to folk who aren’t Christians. As I go around the world these days, I find many people who are fascinated by some of the questions that modern science raises, questions such as the intelligibility of the universe. How can our minds understand the universe back to such an early stage? The fact that the universe is very carefully balanced, fine-tuned for the existence of life. The question of human significance in such a vast universe. The sense of awe and wonder as you look not just at the vastness of the sky but also the fact that underneath the complexity of the universe are rather simple, elegant, beautiful laws. And I find that many folk, whether they are people of religious faith or not, find themselves drawn in by these questions that say “Is there a deeper story to the universe? Are these pointers to something that goes beyond science?” I don’t believe that they can prove God in any way, but I do think that they are pointers towards a God who in Christ is the best explanation for all of these different areas.</p>

<p><strong>Off camera:</strong> “Let me ask you one question here: you mentioned John Polkinghorne. You studied with him, I believe. Would you tell something about your relationship to John Polkinghorne, and you might begin by saying, ‘John Polkinghorne was my mentor or whatever’. Just a few things about your relationship with him.”</p>

<p><strong>Wilkinson:</strong> One of the most important things for me in the science/faith relationship has been those mentors, those great men and women of faith and science who have helped me along the way. Those have been many for me. One of the key people for me in this area has been Sir John Polkinghorne. John was teaching theology in Cambridge, having retired as head of the Cavendish Laboratory in Cambridge, trained as an Anglican priest, and then started to teach theology just as I arrived in Cambridge also  to study theology. And what I found in his thinking was a commitment to the rigor of science, and someone who not only philosophized about science but had a feel for science as a working scientist, but someone who’s prepared to take that science and contemporary science and use it in theology today.</p>

<p>If I have one criticism of my fellow theologians from time to time it’s that they’re often stuck in the physics of the 19th century rather than the 20th and 21st centuries. They’re still dominated by this clockwork universe, whereas Polkinghorne and others have taken seriously that the universe is very different. And Polkinghorne with many others have spent time with me answering my questions, being gracious to the type of questions I’ve wanted to push, but they’ve impressed me by showing integrity both towards Christian faith and to science by holding the two together and not compromising on either.</p>]]></content:encoded>
        <pubDate>Tue, 10 Apr 12 05:00:58 -0700</pubDate>
        <dc:creator>David Wilkinson</dc:creator>
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        <title>Theory, Prediction and Converging Lines of Evidence, Part 2</title>
        <link>http://biologos.org/blog/understanding&#45;evolution&#45;theory&#45;prediction&#45;and&#45;evidence&#45;2?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</link>
        <guid>http://biologos.org/blog/understanding&#45;evolution&#45;theory&#45;prediction&#45;and&#45;evidence&#45;2?utm_source=RSS_Feed&amp;utm_medium=RSS&amp;utm_campaign=RSS_Syndication</guid>
        <description>We have already discussed hind limb and hair loss in whales, and now we turn to one of the remaining questions: tooth loss in the lineage leading to modern toothless whales.</description>
        <content:encoded><![CDATA[<p class="intro">One of the challenges for discussing evolution within evangelical Christian circles is that there is widespread confusion about how evolution actually works. In this (intermittent) series, I discuss aspects of evolution that are commonly misunderstood in the Christian community. In this post, we continue to explore how whale evolution is supported by converging lines of evidence from developmental biology and genetics. </p>

<p>In the <a href="http://biologos.org/blog/understanding-evolution-theory-prediction-and-evidence-1">previous post</a> in this series, we explored how evolution can force science into making predictions that seem counter-intuitive. For cetacean (whale) evolution, we saw that the preliminary lines of evidence (the fact that whales are vertebrates, and mammals, for instance) pointed to the prediction that modern whales are descended from four-limbed, land-dwelling ancestors. As we then noted:</p>

<blockquote><p>Instantly this prediction raises a host of uncomfortable questions: where did their hind limbs go? How did they acquire a blowhole on the top of their heads when other mammals have two nostrils on the front of their faces? How did they transition to giving birth in the water? What happened to the teeth of the baleen whales? What happened to the hair characteristic of mammals? and so on. In some ways, evolutionary thinking about whales creates more difficulties than it appears to solve.</p>

<p>And yet, these difficulties are the stuff of science. If indeed our “educated guess” of terrestrial, tetrapod ancestry for whales is correct, the evidence will show that these transitions, challenging though they may seem, did indeed occur on the road to becoming “truly cetacean”.</p> </blockquote>

<p>We have already discussed hind limb and  hair loss in whales, citing evidence from embryonic development in modern whales that shows how hair and hind limbs develop early in their embryogenesis, but then are lost at later stages. We now turn to one of the remaining questions: tooth loss in the lineage leading to modern toothless whales (order Mysticeti). To obtain their food these whales pass seawater through a <em>baleen</em>, a large sieve-like structure that filters out plankton, small fish and other food items. Some recent genetics sleuthing has investigated a portion of this riddle, and adds further details to the story of how the baleen whales came to be.</p>

<p align="center"><img src="http://biologos.org/uploads/static-content/humpback_whale_sml.jpg" alt="" height="337" width="450"  /></p>

<h3>Evolution: A Theory with Bite</h3>
<p>If indeed modern whales are descended from ancestral, four-limbed, terrestrial ancestors, then those ancestors, like mammals in general, had teeth. Modern toothed whales (order Odontoceti) have retained those teeth to the present day, but baleen whales have adopted a new way of life as filter-feeders. Researchers were curious to see if traces of a “toothed past” could be found in the genomes of modern baleen whales, so they went hunting for remnants of genes devoted to making teeth. Such defective gene remnants would be examples of <em>pseudogenes</em>, and we have discussed pseudogenes previously in this series. While pseudogenes in and of themselves are powerful evidence for evolution, pseudogenes that are “out of place” are especially so. One such example we have seen before is the human <em>vitellogenin</em> pseudogene, the remains of a gene used for yolk production in egg-laying organisms found in the exact location in the genome that evolution would predict for it. As mammals that receive embryonic nourishment through a placenta, we have no need of egg-yolk genes. Similarly, baleen whales have no need for genes responsible for making teeth, and finding the remnants of such genes would make a strong case for an evolutionary origin of baleen whales as the modified descendents of toothed whale ancestors.</p>

<h3>Independent Lines of Evidence, but Contradictory Stories?</h3>
<p>Some of the genes known to be used in all mammals for tooth formation were the obvious candidate genes to start with: the products of the ameloblastin, amelogenin, and enamelin genes are all used in the formation of tooth enamel, the hardest structure in the vertebrate skeleton. Researchers went looking for these genes in several Mysticete (i.e. toothless whale) species. The results showed that all the species studied did indeed have these three genes present as pseudogenes (and more specifically, as <em>unitary</em> pseudogenes, a special class of pseudogene we have discussed in detail <a href="http://biologos.org/blog/understanding-evolution-is-there-junk-in-your-genome-part-4">previously</a>). Finding these genes as pseudogenes in toothless whales was exactly what evolution predicted, but there was a catch: none of the mutations that removed the functions of these three genes were shared between different species, suggesting that these genes lost their function independently in the species studied. This finding was at odds with data from the fossil record, which suggested that teeth were lost only once, and early in the lineage leading to all modern toothless whales. So, the researchers seemed to have two lines of evidence that at face value contradicted each other. The fossil record suggested that tooth loss occurred once in the common ancestor of all toothless whales, but these three genes seemed to have been inactivated independently, several times over, suggesting that loss of teeth should be happening later in Mysticete evolution, and more than once.</p>

<p>One proposed explanation for the apparent discrepancy (among several put forward) was to predict that a fourth gene required for enamel formation was lost early in Mysticete evolution. The loss of any one gene necessary for forming enamel would be enough to prevent the process altogether. In this case, the loss of this fourth gene would prevent tooth enamel from forming, even though the genetic sequences of the other three enamel genes would still be intact. Once enamel function was lost, random mutations in the remaining enamel genes could then accumulate later in Mysticete evolution after speciation in this group was already underway. To test this hypothesis, the research group went hunting for other enamel genes in toothless whales.</p>

<h3>Signature in the SINE</h3>
<p>The smoking gun for tooth loss in Mysticetes turned out to be exactly what was predicted: a fourth gene, necessary for enamel production, and mutated with the same inactivating mutation in all modern toothless whales. The gene in question, named <em>enamelysin</em>, was destroyed when a mobile genetic element called a SINE transposon inserted into it, breaking it into two halves and removing its function:</p>
 
<p align="center"><img src="http://biologos.org/uploads/static-content/whale_evolution_fig_2_1.jpg" alt="" height="273" width="570"  /></p>

<p>The fact that the same SINE insertion mutation at an identical location is found in all modern Mysticete species indicates that this mutation happened once in a common ancestor and then was inherited by the entire group.  Since this must have occurred early in the evolution of toothless whales in order to happen in the common ancestor of the entire group, the picture from the genetics and the fossil record match. Once again, findings in one discipline (in this case, paleontology) can be used to make very detailed predictions about what another, unrelated discipline (comparative genomics) should reveal. These results are also entirely consistent with the observation, made in the 1920s, that toothless whales form tooth buds during embryogenesis that are later reabsorbed prior to the point when the deposition of enamel would begin. As with the hind limb story in whale evolution, lines of evidence from genetics, paleontology and embryology converge to support the hypothesis that modern toothless whales descend, through modification, from toothed ancestors.</p>

<p>In the next post in this series, we’ll examine a few more lines of evidence for whale evolution, and extend our discussion to converging lines of evidence for the evolution of our own species.</p>

<h3>For further reading:</h3>

<p>Meredith, R.W., Gatesy, J., Cjeng, J., and Springer, M.S. (2011). Pseudogenization of the tooth gene enamelysin (MMP20) in the common ancestor of extant baleen whales. Proceedings of the Royal Society B: 278 (1708); 993 – 1002. Available online: <a href="http://rspb.royalsocietypublishing.org/content/early/2010/09/16/rspb.2010.1280.full.pdf">http://rspb.royalsocietypublishing.org/content/early/2010/09/16/rspb.2010.1280.full.pdf</a></p>

<p>Ridewood, W.G. (1923). Observations on the skull in foetal specimens of whales of the genera Megaptera and Balaenoptera. Philosophical Transactions of the Royal Society of London B: 211; 209 - 272. Available online: <a href="http://rstb.royalsocietypublishing.org/content/211/382-390/209.full.pdf">http://rstb.royalsocietypublishing.org/content/211/382-390/209.full.pdf</a></p>

<p>See Related Posts in the sidebar</p>
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        <pubDate>Thu, 05 Apr 12 05:15:22 -0700</pubDate>
        <dc:creator>Dennis Venema</dc:creator>
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