So, I’ve decided to try a slightly different approach for the next while—one that has these sorts of folks in mind. From time to time, you can still expect those more in-depth, technical articles, or perhaps a discussion of some new research that makes the popular press, or even an analysis of some new argument from the IDM or RTB. These will be breaks from the new routine, however. For the most part, we’re going to stick to the basics, much like you would if you took an introductory evolution course at a university. Don’t worry, though: this course doesn’t have any prerequisites! All that’s needed is a willingness to learn.

What you can expect

The goal of this course is straightforward: to provide evangelical Christians with a step-by-step introduction to the science of evolutionary biology.  This will provide benefits beyond just the joy of learning more about God’s wonderful creation. An understanding of the basic science of evolution is of great benefit for reflecting on its theological implications, since this reflection can then be done from a scientifically-informed perspective. From time to time we might comment briefly on some issues of theological interest (and suggest resources for those looking to explore those issues further), but for the most part, we’re going to focus on the science. For folks interested in the interaction between science and Christianity, I heartily recommend Ted Davis’ recent series as a fabulous introduction to the topic.

You can also expect a slow, patient pace. Since this course is intended for folks with little or no background in biology, we’re going to take our time to make sure no one gets left behind. This might be frustrating to folks who already know a fair bit about evolution. Hopefully even more knowledgeable readers will learn some new and interesting details along the way—but the goal will primarily be to help folks who are less well versed in evolution increase their understanding.

You can also expect a survey of many different areas that have some bearing on evolution. We’ll examine geology, paleontology, biogeography, genetics, and a host of other topics in order to provide a “big picture” overview. This broad-brush approach means that any given individual post will not necessarily be “convincing” to folks who have doubts about evolution. Think about assembling a large jigsaw puzzle: placing any individual piece, on its own, doesn’t convincingly demonstrate what the overall picture will show. This course will be like that. Each topic we cover will put a few pieces in place here and there, slowly building towards the final overall picture.

Since evolution is an active science, this process will also highlight where there are “missing pieces” that are still being sought by scientists. All of this is well and good, since the purpose of this course is not so much to convince anyone of the validity of evolutionary theory, but rather to inform readers about the nature and scope of evolution as a scientific theory in the present day. My goal is to provide readers with a basic understanding of what evolution is and how it works. Given that as the primary goal, if one finds the scope of the evidence ultimately convincing (or not) is somewhat beside the point. The intent here is to provide readers with information they can use to make their own, informed decision.

How you can help

First and foremost, you can help by spreading the word about this series to folks you think would be interested in learning more about evolution in a non-threatening environment. Secondly, you can help me by asking questions in the comments. One of the challenges of being a specialist is having the ability to put oneself in the shoes of someone just starting out. What might seem obvious to me may not seem obvious to you, and I hope you’ll feel that no question is too basic or too simplistic. If you’re wondering about something, it’s almost guaranteed that other folks are, too! So, please don’t be shy. I’ll do my best to answer questions in the comments, though I hope that some of our more skilled commenters will (respectfully!) help out here, as well. Finally, you can help by letting me know what broader areas of evolution you find confusing. I have my own ideas about what areas of evolution are commonly misunderstood, but I’d love to hear from readers about what areas they find difficult to understand. I’ll use this input to shape the topics I will cover as we go forward.

Getting started

In the next post in this course, we’ll dive into the course content by introducing two key areas: how scientific theories work in general, and how evolution in particular works as the current organizing theory of modern biology. 

Despite having been raised since birth in the Church of the Nazarene, I never encountered the ideas of Young Earth Creationism until I was almost 17. That's not to say that my church teachers accepted evolution, but none of them seemed to have a problem with the age of the earth. Much has changed in our church during the last 40 years.

I first encountered Creationist thought during high school in 1974 when I read the book Scientific Creationism² by Henry Morris, the acknowledged father of the modern Creationist movement. This book explained how the earth was created about 6,000 years ago during six 24-hour days, how all of the fossil-bearing rock layers were deposited during Noah's Flood, how biological evolution was impossible, how scientists had conspired to make up theories that denied the evidence of Creation, and how true science confirmed a literal reading of the book of Genesis. Each chapter addressed an issue as a simple choice with only two answers (e.g., Evolution or Creation?, Accident or Plan?, Old or Young?, Apes or Men?), and those choices were summarized in the conclusion with the following statement:

"There seems to be no possible way to avoid the conclusion that, if the Bible and Christianity are true at all, the geological ages must be rejected altogether."³

With a high-school level understanding of science and theology, I was convinced by this "either-or" argument and, to my knowledge, became the first Young Earth Creationist in my local Nazarene church. I knew the enemy and the enemy had a name. It was Evolution.⁴

After high school, I enrolled at Olivet Nazarene University. Initially, I had no goal in mind other than possibly studying science. I was placed in the Chemistry program and spent the first year getting required courses out of the way. One of those required courses was Old Testament Bible, during which I frequently argued with the professor whenever ideas were presented that didn't support a literal reading of Genesis or a Creation event only 6,000 years ago. By the end of my freshman year, I felt led to change my major to a combined Geology-Chemistry degree. I had always loved collecting minerals, rocks, and fossils and dreamed of a career where I could travel to remote mountains and wild places. But geology also presented another challenge. I had heard that the geology professor didn't necessarily believe the earth was young.

I remember going to that first Geology class armed with every available Creation Science argument, ready to do battle for the faith. Yet despite my preparation, it was for naught. I found myself walking the same path as the earliest geologists, who, starting from a perspective of a Biblical Creation about 6,000-years in the past, saw evidence in the rocks for so many different events and environments, which convinced them the earth was much older than a few thousand years. I saw how rock layers could be grouped into larger "geologic ages" based on their depositional environment and fossil content with boundaries defined by major environmental changes or an extinction event. I was shocked to discover that these geologic ages had been identified and named, not by God-denying Evolutionists, but mostly by Christians and even ministers who saw their work as glorifying to God. Not only were the geologic ages real and the earth older than 6,000 years but the fossils within them told a story of change: starting in the oldest rocks with strange creatures unlike anything seen today, followed in order by the earliest appearances of fish, amphibians, reptiles, mammal-like reptiles, dinosaurs, birds, and placental mammals and with the youngest rocks containing fossils of extinct animals that closely resemble those extant. Thus, the rocks even supported one of the lines of evidence used by Charles Darwin in his argument for descent by modification (now called evolution).

Although I was fascinated by geology and had found a scientific field that I loved, my faith was in shambles. Based on what I had believed and read in the Young Earth Creationist literature, if the geologic ages were real, if the earth was old, if evolution had happened then the Bible was false, Christianity wasn't true, and Christ's death on the cross was meaningless. So what was left? I felt betrayed and seriously considered leaving the church. In retrospect, two factors kept me from leaving: (1) the support of a strong Christian family (and a young lady soon to be my wife) that gave me the freedom to question without condemnation; and (2) the strong witness of my Olivet geology professor, who had not only faced all of the same scientific evidence but was one of the most Christ-like men I had ever met. But before I could move on, I had to recognize that I had been snared by a false dilemma and that the Bible didn't need to be read as a scientific treatise on how to create a world. That was a time of turmoil and what I needed most was theological support that would allow me to reconcile what I read in the Bible with what I saw in the rocks.

Yet, in another way, I was fortunate. I had only lived with this false dilemma for three years before having to deal with scientific evidence that shook my faith. Unlike my own youth, today many young people in our churches have been inculcated since birth with these either-or statements through Sunday School, VBS, homeschool textbooks, and church-sponsored schools. How much harder is it for these students to study sciences like geology, astronomy, anthropology, paleontology, or biology and still preserve a faith that has been supported by a false dilemma? I have seen students break down into tears as they stood on an outcrop of rock and saw evidence that contradicted what their church had taught them. I have comforted my own daughter when she was told by a Sunday School teacher that she couldn't be a Christian if she accepted evidence for evolution. I have talked with scientists who were once raised in a church and are now bitter agnostics because the church "lied to them" about science.

My hope in these discussions is not that we all come to the same scientific or theological understanding of evolution or age-of-the-earth issues but that we can move away from the false dilemmas forced by an exclusive and rigid mode of Biblical interpretation. God is too great and majestic to be confined in man's theology. We have to allow Him to inspire and even surprise us from all of his Creation and not just from the Bible.

Notes

1. http://rationalwiki.org/wiki/False_dilemma
2. Henry M. Morris, Scientific Creationism (General Edition) (San Diego, CA: Creation-Life Publishers, 1974).
3. Morris, p. 255
4. For many Christians today, the term evolution doesn't just refer to the concepts of common ancestry, descent with modification, or natural selection; it has been expanded to include issues with the age of the earth, geology, cosmology, nuclear physics, paleoanthropology, and a host of other scientific ideas that are perceived to be in opposition to Young Earth Creationism. As one wag put it, "Evolution is all the science I don't believe in."

In concordist interpretations, God made the earth using the sequence of events described in Genesis 1. In non-concordist interpretations, God created the earth using a different timing and order of events than those described Genesis 1.

How should Christians go about choosing among all of these interpretations? Such a decision should be based on consistent principles and prayerful reflection, not just on “what sounds good.” Here are our own conclusions.

Weaknesses in Concordist and Non-Concordist Interpretations

Both concordist and non-concordist interpretations of Genesis 1 arise from good motives, a desire to show that the Bible does not conflict with nature’s testimony.  But both types of interpretations have their pitfalls.

For concordists, the temptation is to interpret every Bible verse to match the current scientific picture. The meanings of particular phrases can be bent out of shape to match a particular scientific finding. For example, Hebrew words that literally meant birds or plants to the original audience are redefined to meet some modern scientific category such as insects or single-celled organisms, just to make the order of events line up. By focusing on trying to match the details of the ancient text to twenty-first century knowledge, the concordist may miss meanings in the passage that were clear in the original cultural context, including important spiritual insights. Moreover, concordists can be forced to regularly change and update their interpretations as modern scientific knowledge grows and changes. For instance, the Gap Interpretation twisted the meaning of Genesis 1:2 outside its original intent; later it failed to match new scientific evidence.

For non-concordists the temptation is to interpret every Bible verse that appears to disagree with science as figurative without first studying the text. By interpreting a text that was intended tobe understood literally as metaphoric, they may bend the meanings of particular phrases to refer to purely spiritual ideas and ignore the historical meanings they had in the original cultural context. At one extreme non-concordists can apply the same strategy to all Bible passages and even interpret Jesus’ miracles and resurrection as spiritual symbols simply because they think that miracles are scientifically impossible.

For both concordists and non-concordists the temptation is to let science drive the interpretation of Scripture more than it should. When an apparent conflict arises between science and a biblical text, it can and should motivate us to consider a biblical passage more closely. The scientifically discerned testimony from God’s book of nature can even be a useful tool for deciding between two or more biblical interpretations that are otherwise equally valid. But the interpretations themselves are not determined by science; they must be driven by theological considerationsand be consistent with the rest of Scripture.

To avoid these risks we need to look at what the best biblical scholarship has to say about the passage rather than at how it fitswith science. Finally, we must take care that the desire to resolve conflicts does not distract us from the main message God has forus in the text. Our primary calling as Christians is to live our lives according to the clear messages of God’s Word; it is a lesser calling to debate the subtleties of interpretation of less clear passages.

Genesis 1 in Its Original Context

To choose among the various interpretations, we recommend using a consistent approach based on the principles of biblical interpretation discussed in chapter 4.  The first principle, that each passage should be interpreted in light of the rest of the Bible, provides some guidance. For instance, the Bible’s teaching on God’s truthfulness and his glory displayed in creation might lead us away from the Appearance of Age Interpretation.  The differences between the Genesis 1 and Genesis 2 accounts might point toward a non-concordist interpretation.

The second principle of interpretation gives more direction. It reminds us first to work out what the passage meant in its original literary, cultural, and historical context, and then figure out what meaning it has for us today. How do the various interpretations fit this principle? Of the four concordist interpretations discussed in chapter 5, the Young Earth Interpretation seems to come closest to what ancient peoples would have heard in the text. The Gap and Day-Age concordist views would have baffled the original audience, since these ancients would have had no concept of geological ages; if they could not fathom time periods of millions or billions of years, the text must have meant something different to them.

Of the four non-concordist interpretations of Genesis discussed in this chapter, the Proclamation Day Interpretation, while it has some basis in the text, seems least likely to be the meaning heard by the original audience. The proclamations are implemented as soon as God says them, and there is no reference to a different timing or sequence of events in terrestrial time. In our view a combination of the Ancient Near East Cosmology, Kingdom and Covenant, and Creation Poem Interpretations come closest to what the original audience would have heard. The differences between the Genesis text and the pagan stories highlight the sovereignty of God and the goodness of creation. The elegant poetic structure and inspired phrases reinforce the theological messages of the Kingdom and Temple interpretations.

Genesis 1 for Modern Readers

With a better understanding of what the original audience heard,we have insight into God’s message for them and thus for us. If God’s purposes in Genesis 1 did not include teaching scientific facts to the Israelites, then we should not look here for scientific information about the age or development of the world. For modern readers, as for the original audience, the message of Genesis 1 is its powerful theological truths. God does not use theBible to teach us the physical processes he uses to make the rainfall or the earth orbit the sun or to form the mountains. Instead, in a beautifully crafted and impressively short text, God teaches us all about

• his sovereignty.
• the goodness of creation.
• the honored status of humankind as his image bearers.

God has given us a text that speaks of the physical world in simple terms, based on how it appears, in order that all peoplemight understand it.  The common language of this text has made it accessible to people of many times and cultures, aiding the communication ofthe gospel around the world.

Does a non-concordist interpretation of Genesis 1 mean that we have sacrificed a literal understanding of the gospel? No. TheGospels were surely heard by their first audience as historical eyewitness accounts by the disciples, and everything about the emphasis and tone in those books indicates that Jesus’ resurrection and miracles are essential events in the story. That is how we should read the Gospel stories still today. In Genesis 1, on theother hand, the first listeners heard nothing new about the physical universe; all the emphasis was on who created the world and humanity and why they were created.

What does this mean for science? It means that Genesis 1 is not a science textbook. The text was never intended to teach scientificinformation about the structure, age, or natural history of the world. Thus, comparing Genesis 1 to modern science is likecomparing apples to oranges. Or perhaps more accurately, comparing Genesis 1 to modern science is like comparing Psalm 93:1 (“The world is firmly established; it cannot be moved”) to modern astronomy. Genesis is neither in agreement nor in conflict with the sequence of events found by astronomy and geology.

As scientific knowledge increases and changes over the centuries, its understanding of the physical structure and historyof the earth will change. But through all of those centuries the theological truths of Genesis 1 remain the same: there is one sovereign God who makes light from darkness, creates an ordered world from chaos, and fills an empty world with good creatures. Humans need not fear the capricious whims of a pantheon ofgods but can instead trust in the one true God who made us in his image and declares us “very good.”

For more discussion of Biblical interpretation, see chapters 4, 5, and 6 of Origins. Next week, we'll look at an excerpt on astronomy and the age of the universe.

Excerpt from Chapters 5 and 6 of Origins: Christian Perspectives on Creation, Evolution, and Intelligent Design (Grand Rapids, MI: Faith Alive Christian Resources), 2011. Reprinted with permission. To order purchase a copy of the book or e-book, please call 1-800-333-8300 or visit our website www.faithaliveresources.org.

Want a free copy of Origins?  For a limited time, donations of $50 or more will receive a  copy of the book! Plus, from now through April, your gift will be doubled thanks to a matching grant from a generous donor. You can learn more here.

Such remnants are also found in our genomes.  Humans, unlike most mammals, cannot synthesize (make) our own vitamin C, but we carry the genes for synthesizing vitamin C.  One of these genes encodes the GLO (L-gulonolactone oxidase) enzyme, and this gene in humans contains inactivating mutations and is therefore a “pseudogene.”  This pseudogene and the genes that encode the enzymes of the vitamin C biosynthetic pathway are the remnants of our own evolutionary lineage from an ancestor that was able to synthesize its own vitamin C.⁴ Furthermore, the GLO pseudogene is just one of a graveyard of inactivated genes, transposons, retroviruses and other non-functional sequences that litter our genome.  While some of these sequences have been co-opted for particular functions, many of them have no known function.⁵ We share many of these non-functional sequences with chimpanzees.  The very presence of these genomic and anatomical flotsam and jetsam only makes sense if evolution has occurred.⁶

A third piece of evidence for evolution comes from biogeography.⁷ The flora and fauna of islands such as those of the Galápagos and Hawaii are radically unbalanced in that they lack many types of plants and animals but contain a profusion of clusters of similar species.  Hawaii, for example, has no native mammals, reptiles, or amphibians, but a profusion of fruit flies and silversword plants.⁸ One third of the 2,000 species of fruit flies are found on the Hawaiian Islands, which only covers 2 percent of the land on earth.  These islands were never connected to the continents and arose as a result of volcanic activity and were, at least initially, completely uncolonized.  The colonization of these islands occurred by means of occasional introduction of creatures from the mainland that then rapidly speciated on these islands to fill every available ecological niche.  Thus, the organisms most closely related to island species come from the closest mainland areas, and often include those creatures most likely to find their way to islands, such as birds and flying insects. 

The Galápagos Islands provide an excellent example of how biogeography provides evidence for evolution. The Galápagos have fourteen species of finch whose closest relative is probably the South American grassquit (Tiaris), yet only four of these finch species feed on seeds as finches normally do, while two others feed on cacti, seven eat insects, and another eats almost exclusively leaves.⁹ Darwin, while visiting the Galápagos, still thought that species only varied within a particular kind (though he would not have used that terminology) but could adapt to various local environments and become particular subspecies. Therefore, he originally listed the warbler finch (Certhidea olivacea) as a wren and listed the small cactus finch (Geospiza scandens) as a member of the Icteridae or the family of meadowlarks and orioles.  Only after Darwin had deposited his Galápagos specimens with the British ornithologist John Gould did Darwin discover (in a meeting with Gould that occurred during March, 1877), that his finch collection included thirteen or fourteen species of unusual finches that were all so closely related, Gould classified them in a single group all their own.  This meeting showed Darwin that the immutable barrier between kinds of species did not exist.  The Galápagos Islands were not a distinct “center of creation,” but a workshop for evolution in which an ancestral species made it to the yet uncolonized island and underwent a massive degree of speciation to adapt to the environment of the island.¹⁰ This is precisely what one would expect if the species of islands had arisen by evolution. 

A scientific theory also allows scientists to make predictions, and good theories provide accurate predictions.  Can the theory of evolution allow accurate predictions?  The answer, once again, is yes.  Darwin himself predicted that the earth must be very old for evolution to occur.  He did not know the age of the earth, but further research has shown that the earth is 4.55 billion years old, which is plenty of time for evolution to occur.  Darwin also predicted that since plants on islands were most closely related to certain mainland plant species, the seeds of these plants should be able to withstand immersion in sea water for long periods of time, and again, Darwin was shown to be right.¹¹ Many decades after Darwin, we now know that variation in organisms is due to mutations in DNA and that these mutations are inherited, just as Darwin predicted.¹² Also, Darwin’s principle of natural selection predicts that particular sequences of DNA should behave in a manner that benefits only themselves and not their carriers, which modern research has thoroughly confirmed with the discovery of transposons and other types of “selfish DNA.”¹³

Is evolutionary theory a good scientific theory?  It has been repeatedly tested for over 150 years since its inception, and it has passed those tests successfully.  The theory has been modified in response to new data, but the outlines of the theory have remained largely intact.  It has existed at risk from new data.  During the molecular biology revolution that began with the discovery of the structure of DNA by Franklin, Watson and Crick in 1953, the explosion of new data could have shown contemporary evolutionary theory to be wrong.  However, some of the most powerful evidence for the theory of evolution has come from a field of science that did not even exist during Darwin’s time.  The ability of a theory to withstand such intense scrutiny is a clear sign it is robust and enduring.  As shown, the theory of evolution has predictive power, and it also integrates and makes sense of data from several fields of science, including ecology, paleontology, genetics, historical geology, paleoclimatology, and comparative anatomy and biochemistry.  The highly integrative nature of evolutionary theory makes it a fine theory by any measure. 

In conclusion, when measured against the standards of a good scientific theory, modern evolutionary biology clearly qualifies as good science.  Ongoing debates within evolutionary biology exist about mechanism, rates, and causes, but not over whether evolution occurred.  Such a question has been largely settled by the last 150 years’ worth of research.  The future certainly looks bright for this field of science and I cannot imagine a more exciting topic to study. 

Notes

1. Davit-Béal, Tiphaine,Abigail S. Tucker, and Jean-Yves Sire. “Loss of Teeth and Enamel in Tetrapods: Fossil Record, Genetic Data and Morphological Adaptations.” Journal of Anatomy 214, no. 4 (2009): 477–501. 

2. Tian, Natasha M. M.-L., and David J. Price. “Why Cavefish are Blind.” BioEssays 27 (2005): 235–38; Yamamoto Y, Stock DW, and Jeffery WR (2004) Hedgehog Signalling Controls Eye Degeneration in Blind Cavefish. Nature 431:844–7; Jeffery, W. R. “Adaptive Evolution of Eye Degeneration in the Mexican Blind Cavefish.” Journal of Heredity 96, no. 3 (2005): 185–196. 

3. Bejder, L., and B. K. Hall. “Limbs in Whales and Limblessness in Other Vertebrates: Mechanisms of Evolutionary and Developmental Transformation and Loss.” Evolution and Development 4, no. 6 (2002): 445–58. 

4. Lachapelle, M. Y., and G. Drouin. “Inactivation Dates of the Human and Guinea Pig Vitamin C Genes.” Genetica 139, no. 2 (2011): 199–207.

5. Avise, John C. Inside the Human Genome: A Case for Non-Intelligent Design. New York: Oxford University Press, 2010.   Romano, C. M., F. L. Melo, M. A. Corsini, E. C. Homes, and P. M. Zanotto.  “Demographic Histories of ERV-K in Humans, Chimpanzees and Rhesus Monkeys.” PLoS One 2, no. 10 (2007): e1026. http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0001026. 

6. Max, “Plagiarized Errors and Molecular Genetics,” http://www.talkorigins.org/faqs/molgen.

7. Coyne, Jerry A. “Intelligent Design: The Faith that Dare Not Peak Its Name.” In Intelligent Thought: Science Versus the Intelligent Design Movement, edited by John Brockman, 3–23. New York: Vintage, 2006. 

8. Kricher, John. Galápagos: A Natural History. Princeton, NJ:  Princeton University Press, 2006. 

9. Grant, Peter R., and Rosemary B. Grant. How and Why Species Multiply: The Radiation of Darwin’s Finches. Princeton, NJ: Princeton University Press, 2011. 

10. Sulloway, Frank J. “Why Darwin Rejected Intelligent Design.” In Intelligent Thought: Science Versus the Intelligent Design Movement, edited by John Brockman, 107–25. New York: Vintage, 2006. 

11. Darwin, Charles. “On the action of sea-water on the germination of seeds.” Journal of Proceedings of the Linnean Society of London (Botany). 1 (1857): 130–140.

12. Futuyma, Douglas J. Evolution. 3rd ed. Sundbury, MA: Sinauer Associates, 2013. 

13. Dawkins, Richard. The Selfish Gene. New York: Oxford University Press, 2006.

I was raised in a Christian home, where the Bible was a part of daily life. My family was very committed (probably overcommitted) to our local church, my father read the Bible aloud every night, and in a given year I probably went to half a dozen Bible-centered events. The only test I ever failed was in 7th grade.Every question on the test was about evolution, and every answer I gave was from the Bible. I wasn't a scientist but knew what Scripture said was sufficient for me.

By the time I graduated high school, I had memorized more Scripture than most people do in a lifetime, and along the way I had read dozens, probably hundreds, of books about spiritual warfare, the end times, and the mountains of evidence which proved the Genesis creation account was absolute fact. And in my sophomore year of college, I had made the ultimate sacrifice: I had given up on my intended lucrative career in psychiatry to pursue the thankless, penniless life of a minister, because I was certain that's what God was calling me to do.

So there I sat in a class on the prophets, giving a brilliant (in my estimation) explanation of how Daniel's 70th week and Revelation fit together, when my professor leveled that unforgivable charge, "You don't take Scripture seriously." Perhaps you can understand now why the very thought offended me. He asked me to turn to 2 Timothy 3 and read verses 16 and 17. I did him one better and quoted them without hesitation.

"All Scripture is God-breathed and is useful for teaching, rebuking, correcting and training in righteousness, so that the man of God may be thoroughly equipped for every good work."

He was not impressed by my instant recall, and pressed on making his point.

"Can you tell me where in the Bible it says Scripture is useful for telling the future?"

I could not.

"Where does it say Scripture is a primer on the end times?"

It doesn't.

"How about Math, or history, or geography, or science?"

No, I didn't know those passages either. He continued.

"The problem, Shea, is that you are asking Scripture questions it's not meant to answer, and not bothering with the questions it does. How does your analysis of these prophecies equip people to do good works? How does it teach, rebuke, correct, or train them in such a way that they can be righteous? If your interpretations can't do any of these things, then what's the point in having them?"

I couldn't bring myself to say it at the time, but my professor was completely right. I had spent so much time using the Bible as evidence to prove my point that I hadn't bothered to consider its intended purpose. It was as if I had been given a nice new pair of shoes, but instead of wearing them and letting them take me where I needed to go, I had been using them to kill bugs, prop open doors, and fix wobbly table legs. Shoes can be made to do all of those things, but that's not their purpose. There are other items out there that do those jobs a whole lot better. I hated to admit it, but I knew that I had to reconsider everything I thought I knew about Scripture.

So I began studying in earnest once more, but this time instead of trying to gather facts and evidence, I would ask myself "what is there about this passage that helps me to be prepared for good works?" Sometimes it changed my understanding a little, sometimes a lot, and sometimes not at all. But when I finally decided to tackle Genesis, everything changed. I half-read, half-remembered the seven day creation account. As I read, asking how this passage fulfilled the purpose of Scripture, I was amazed. This was the story about a God who cared about everything in the universe. It was a story about a God who looks at the world, at living things, and even at humans, and calls them "good." But they weren't just good. Those humans were a reflection of who God was. They bore in themselves an image of the Divine. It was a beautiful, intimate story about God's special love for and relationship with humans, which included me. It was then that I realized I could no longer read this, one of the greatest love poems ever written, as though it were a list of facts whose only use was to prove others wrong.

I am still not a scientist. I have read a lot on the subject, but I can't really tell you with absolute certainty the age of the earth or the timeline of how humans came into being. What I can tell you is what I learned the hard way: to really take Scripture seriously, we have to let Scripture do what it was meant to do. Scientists may find indisputable evidence tomorrow that this or that story in the Bible didn't happen exactly as written, but that won't matter one bit for those who take Scripture seriously. We need not plug our ears or drown out the voice of the scientists because we know the right question to ask of Scripture, and it is not, "Is that exactly the way it happened?" Scientists will do what they do best, proving and disproving this or that theory. We will be able to accept that with ease because we take Scripture, and its purpose, seriously.

JIMMY LIN: Currently I’m on faculty at Washington University at St. Louis, where I am a research instructor in the pathology department. Also, a year and a half ago, I founded the Rare Genomics Institute (RGI)—a nonprofit that helps find cures for people with rare diseases.

ER: What qualifies as a “rare disease”?

JL: These are diseases like cystic fibrosis and Huntingdon’s disease—diseases that affect less than 200,000 Americans each year. There are over 7000 different rare diseases, and less than 5% of them have any therapy. Altogether, they affect about 25-30 million people.

This creates what we call a “long tail problem”—it’s hard for a top-down research system to create research programs for all 7000 rare diseases. So instead, we are creating a bottom-up platform from which the patients themselves can create research projects and help fund them. We connect patients with physicians and researchers, customize a research program with top medical universities, design the experiment, and then use an online fundraising platform to fund the study through [mostly] friends and family of the patient.

Basically, we create a “foundation in a box.” By partnering with the Rare Genomics Institute, patients and their friends and families who want to study rare diseases don’t have to go through the hoops of creating their own nonprofit or lab—we do that for them. So, instead of creating 7000 different nonprofits, we create a generalized platform from which studies can be conducted.

ER: Who qualifies for care through the Rare Genomics Institute?

JL: Anyone with a rare disease can come to us. The main thing we’re doing right now is diagnosis. When families come to us, they either don’t know the disease that’s affecting them or their child, or they don’t know the gene that’s wrong.

For instance, if a child had a condition that doctors couldn’t identify, his or her parents might come to us for help. What we’d do then is sequence the genes of the mother, father, and child, and compare them to reference genome to determine what mutations each of the parents have. Depending on what the disease is and what the gene causing it is, we can filter out mutations that don’t mean anything using the parents’ genomes—then, after filtering, we can potentially pinpoint the genes that fit the genetic pattern of the disease. This is the first step.

After that, we are building infrastructure to determine the effect of these changes and a way to help. For example, after looking at the literature, we can perhaps design experiments using cells extracted from the patient; this part of the process is different for every disease. Then, if we can determine that there is, for instance, a pathway missing a specific enzyme, we can try using drugs, a bone marrow transplant, or gene therapy to try to put healthy cells into the child… But there’s a variety of diseases, of course, so there’s a variety of different approaches—and we’re just starting to explore these aspects.

ER: How did RGI get started?

JL: It really started when I was in medical school at Johns Hopkins—there was this boy that came to our clinic to be seen. My research was in cancer genome sequencing, and the family had come to our department looking for answers about what was wrong with their son. At that point, the family was almost hopeless—they had gone to so many doctors, run so many tests—I decided I wanted to try to help children like this. That’s when my friends and I decided to start the Rare Genomics Institute.

Currently, there are about 50 researchers associated with the organization, and we are all volunteers. It’s growing much, much faster and been more amazing than we’ve ever imagined—we’re already making an impact. In May of last year, we were able to discover a new disease using the world’s first crowd-sourced, crowd-funded genome. Working with researchers at Yale, we delineated a disease of which our patient was the first identified.

Right now, we’re in the middle of raising funding and hiring staff to make this organization one that is self-sustaining, and to increase its impact even more.

Excerpts from Michael Hickerson Interview

MH: …you call yourself a doxologist. What’s the full term you used in your Jubilee bio?

JL: Medical and scientific doxologist.

MH: How did you decide on that term and what does it mean to you?

JL: I listen to a bunch of teaching by J.I. Packer , who teaches theology at Regent College and is one of the leading thinkers on these things. Interestingly, before any one of his classes, he says “Theology is for doxology,” and then the whole class sings the Doxology together out loud in class. I thought, “Wow, that is so great,” because everybody sometimes learns theology just for intellectual things [instead of for worship].

That’s not just true for theology, it’s for everything: biology is for doxology; chemistry is for doxology. That’s when I started to think, I should consider myself, first and foremost, as a person who praises God in what I do. And then no longer make “Christian” the adjective, right? “Doxologist” is the noun. But then what kind of doxologist am I? So I call myself a medical and scientist doxologist. I would call someone, for example, in the marketplace, a business doxologist. Or, someone who does art, an artistic doxologist. To really have the noun as our identity, and then our vocation as just a descriptor of how we do that.

MH: That’s a great point. A noun is always stronger than the adjective. So, you want that to be the focus, rather than the add-on.

JL: In our current culture, we’re defined by our jobs. It’s having a vocation. I wanted to shift away from that. I didn’t want to be a doctor first and foremost, or a scientist, but one who praises God. And evidently, within science you don’t want to call yourself a Christian Scientist. That’s another religion, so . . .

MH: [laughs] That’s right. I run into that, as well, when I’m teaching or talking about science to Christians. You always run into that stumbling block.

JL: With “scientific doxologist,” people don’t confuse them. You do have to explain what it means. And that gets in a little story actually, on what it means about vocation. It’s a small lesson — a teaching point when you do talk to people about vocation and calling. That’s why I use it.

MH: I guess my final question would be what spiritual practices help sustain you? What helps you stay in contact with God and keep a good foundation?

JL: First, I am interested in many, many different things. I sort of mix it up in terms of spiritual practices. Besides the fundamentals, of course, of quiet time, devotional reading, and scriptural reading, I do theological study because I have to do that academically. I find a lot of time with God through the spiritual disciplines, such as times of solitude — which is very interesting for someone who is in academics to no longer think about ideas but just to be quiet before God — how silence, time to think by yourself, or sitting in silence is also something you should foster.

In terms of spiritual formation, what you really need is definitely a good community of people. I have a very supportive community at my church. I’m the deacon of devotions, so that of course keeps me on track. It encourages me as I, in my own spiritual walk, encourage other people. Fundamentally, I think for all Christians, whether you are academic or no matter your vocation or calling, being in the Word and prayer are the most important things. Doing that and being spiritually fed is what is important.

DOUG LAUFFENBURGER: It could look like a lot of things. One way to envision what I mean is to put yourself back a hundred years. For instance, in 1913, an electronic computer was unimaginable. But using physics, quantum physics, leading to semiconductors and devices like that, people figured out over the next 20 to 30 years how you could build a machine to do calculations and so forth. And then, of course, all sorts of thing happened…

We’re roughly at that stage with biology, even though it seems like things are more imaginable because—and we don’t have to go strictly century by century here—because we can already guess the way some things might change, whereas in 1913 there was no inkling, really, as to what would happen in the computer revolution.

So, to enumerate some of the things that are conceivable—let’s just start with computers, because we were just there.

There’s a notion that computers get faster and cheaper by making their logic gates smaller, and how you improve a design with physics keeps bumping up against how you make these little units smaller. Well, using biology, the solution seems self-evident—you just line up the pieces of DNA, and if you put the right pieces of DNA in the right places, the resulting parts are so much smaller than the things we can do with physics. You can imagine, even though it’s just a theory now, computers continuing to become many times smaller and cheaper—and be made via environmentally benign manufacturing processes—through biomolecular construction.

Now that’s exciting from one point of view, but from another, it’s not that revolutionary, because you’re just using DNA as a piece of physics. It’s not really biology—it’s merely a biological molecule being used to make better physics.

For a different example, if you think about the way we make things, the way we manufacture plastics, gasoline, energy—we have to do all that using chemistry, and to make that chemistry happen, we have to input a lot of energy—in fact, one of the most costly industries in terms of energy usage is the energy industry. You have to put in so much energy to refine petroleum and things like that. And to make plastics, ceramics—things of that nature—is also very energy intensive, and it’s also where a lot of pollution comes from, because you’re mixing together all these chemicals that really didn’t want to be mixed together. You get what you want, but you get a lot of byproducts, toxins, etc.

Well, people have started to realize that a lot of this work can be redone through the use of biology. You can turn corn into fuel or plastic, and you can make magnetic or electrical storage devices out of biological units (viruses can pattern the crystals, so instead of using mixtures of toxic chemicals, you just pull the viruses with the right properties together). Right on this tabletop, you could make materials that by current manufacturing processes would otherwise cause a great amount of environmental hazard.

As for another exciting development—well, to preface, one of the problematic things about modern agriculture is the necessity of using fertilizers (there are insecticides to be concerned about, too), but fertilizer manufacturing is terrible for the environment. You have to make fertilizer out of ammonia and that’s a horribly polluting and energy-intensive manufacturing process. What you could potentially do, instead, is program into bacteria the genes that take nitrogen out of air, turning it into organic nitrogen then just scatter the bacteria onto the field—and you wouldn’t need to make ammonium using the current very caustic processes.

These are the sorts of things I mean—and we haven’t even touched on medicine, yet. People tend to think about medicinal advances, first, but before you even get to medicine, you can think about energy, manufacturing, materials, and agriculture. In 50 years, we should be able to do things in ways we don’t do them now, that will be cheaper, less toxic, less polluting, more efficient, and so forth.

ER: A lot of people are nervous about the idea of “programming” life. Can you respond to this fear as a Christian?

DL: As a Christian, I would say that God gave humankind dominion over the earth, to do good things—he gave us minds, a passion for understanding how things work, and then he put in this world all these fascinating processes, which, if we figured them out, we could do good things, could feed more people—could feed more people without causing extensive damage to the environment. And cure disease and injury. And the list goes on. I think all that is good, and that God would be pleased that we would be using His creation to live better—I’m not saying more luxuriously, but more happily, contentedly, with each other.

ER: But back to the topic—advances using biology in the next century. You had just mentioned medicine…

DL: So, yes, there’s also medicine. Now, obviously, in thinking about this, the use of stem cells comes to immediately the fore. There are a lot of diseases out there that you really do need to correct using cellular processes. Right now, we try to make these corrections through chemistry. For instance, we give you a pill, and that pill should interfere with something that’s going wrong in your body—and yet it’s really never adequate to just interfere with something that goes wrong in the body, because you don’t really set it right just by getting in the way of it.

The opportunity with stem cells is that you can say, “I’ll replace the cells in the body that are doing something wrong with cells that are actually doing it right again.” If you program cells to be neurons, heart cells, or bone cells, you can regenerate properly functioning physiology. Rather than, say, replacing a hip with a metal part, you could regenerate the bone, itself, or you could regenerate neurons in Alzheimer’s patients. Never in the past has medicine been able to regenerate a proper physiology; it’s only tried to replace it with an inadequate surrogate, or minimize how much damage a disease is doing. With the use of stem cells, you can actually imagine returning the body to its proper physiology.

A different use of stem cells is to generate human tissue in the laboratory for better studies of human physiology and pathology and improved testing of drug effectiveness and toxicity.  This will be a major advance over animal models, because of the significant disparities between animal physiology and human physiology.

A key point to emphasize is that there are different kinds of stem cells, which involve big differences in potential concerns. For Christians, clearly, stem cells derived from embryos present a tremendous ethical issue. Fortunately, a good proportion of stem cell technologies can be pursued using stem cells from adult tissue. These cells can be stimulated to develop into certain tissue-specific physiological behavior, or can now even be “re-programmed” to become quite similar to the more broadly flexible stem cells derived from embryos but now not requiring the embryonic source. Happily, the days of reliance on embryo-derived stem cells appear to be over for purposes of beneficial technologies.

We also should consider genomic medicine, and what’s attractive about that field is that with the way we do medicine now, which is chemistry-based—say you have a disease, and we might give you a pill to correct it—well, the biggest problem with that is that while I think this pill will help ameliorate your condition, maybe it won’t. Maybe that drug only works in ten percent of the patients and not ninety percent.

For example, consider cancer. You’ve got a particular kind of cancer, and we prescribe a certain treatment… well, hopefully you’re among the lucky ten percent, and you’ll be in much better shape in two or three years. If you’re not, then we’ve wasted your time. In fact, we’ve probably hurt you rather than helped you, because we’re using chemistry to interfere with things, and even though we might be reducing the damage of some things, we’re probably causing toxicity elsewhere in the system, because that same chemistry is also interfering over there.

So the value of genomic medicine is to get enough information about you through sequencing your genome that we can say, “Ah, for you this particular pill is not a good idea; it will actually do more damage than good. But for your brother, it’s likely to work, and the ratio of benefit to harm is much better.” This is the reason genomic medicine is more imminent—it’s what’s closest on the horizon to being realized—because we can use the same drugs we have now, we’ll just be using them more effectively. At the moment, we can sequence genomes, and we do have these treatments that help, and it’s just a matter of matching up these two technologies.

Now, on the other hand, when you think about genome sequencing, you can find out all sorts of things, and you have to decide, “What if I learn something negative?”

EDITOR’S NOTE: Join us next week as we continue the conversation about genomic medicine, bioengineering, and being a Christian in science.

Belief in God in an Age of Science

Introducing John Polkinghorne

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.”  (From Physicist to Priest, p. 7)

At the same time, his gift for mathematics did not go unnoticed, resulting in several years of study at Trinity College, Cambridge (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, Michael Atiyah, 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 Queen’s College, Cambridge.

​Sir Michael Atiyah (Source)

Polkinghorne was particularly inspired by the course in quantum physics taught by Paul Dirac, 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.” (From Physicist to Priest, p. 26)

Paul Dirac (Source)

Remaining at Cambridge for graduate study, Polkinghorne worked under the Pakistani physicist, Abdus Salam, who later became the first Islamic scientist to win the Nobel Prize, which he shared with Americans Sheldon Glashow and Steven Weinberg for contributions to unifying the electromagnetic force and the weak nuclear force. Then he did postdoctoral work at Caltech with Murray Gell-Mann, another future Nobel laureate for his work on quark theory, and attended the famous lectures by yet another future Nobel laureate, the late Richard Feynman.

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, The Quantum World, 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 who wrote it. His former students include Nobel laureate Brian Josephson, “the most precociously brilliant undergraduate that I ever taught,” and Martin Rees, who was until recently President of the Royal Society.

Although Polkinghorne has never won a Nobel Prize, in 1974 he was elected Fellow of the Royal Society, 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.” (From Physicist to Priest, p. 71)

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.” (From Physicist to Priest, p. 73) After seminary, Polkinghorne served as a parish priest for many years and later as canon theologian of Liverpool Cathedral. He was knighted in 1997—although, as an ordained minister, he declines to use the title, “Sir John Polkinghorne”—and was awarded the Templeton Prize in 2002. It has been altogether a life well lived for the kingdom of God.

Looking Ahead

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 Discover magazine, and “An interview with John Polkinghorne,” by philosopher Paul Fitzgerald.

References

John Polkinghorne, From Physicist to Priest: An Autobiography (2008).

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.

ECF History

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 & Culture, Leadership Journal, or First Things websites, on your professional society’s listserv, or perhaps on your friend’s blog.

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.

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.

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.

The Grantees

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.

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.

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.

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.  Some examples: 

• 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. 

• 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? 

• 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.

• 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.  

These are just a few of the scholarly awards; check out the Grantees page for full descriptions of all Track 1 and Track 2 projects.

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.  Some examples include:

• 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.

• 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.

• 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.

• 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.

• 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.

Again, this is just a taste of the diversity of Track 3 projects. Read more about each project on the Grantees page. 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.

About a year ago I posted the first article in this series, asking whether recent advances in genomics made any difference to the Judeo-Christian notion of humanity being made in the 'image of God'. That article focused on DNA sequencing data from our closest relatives. This article will focus on the issue of genetic determinism.

Theologians have spent many centuries mining the rich vein of the 'image of God' metaphor. Central to the idea is humanity with spiritual capabilities and responsibilities, equipped for moral decision-making and a relationally rich life in community. Historically, the idea has contributed to the conviction that each human individual has an absolute value, independent of their ethnicity, educational level, health status or income.

Do recent advances in genomics threaten or support such a view of humankind, or are they just neutral? Irrespective of one's belief in God, or not, this is of more than passing interest. Imagine the poor person wrestling for years with the great questions of life and finally deciding to become an atheist, only to then be informed that a cognitive bias derived from his particular set of genetic variants made that decision pretty much inevitable anyway. Such news might be equally unsettling for the person who had just struggled to faith following years of agnosticism. Our deepest human feelings are closely connected with the idea that we choose our own path through life.

The flourishing of genomics in the early part of the 21st century has certainly conveyed the message to many that one's destiny is written into one's genome. Whereas scientists are generally scrupulously careful not to give the impression that there is any such entity as a "gene for" some human trait, by the time the latest discovery appears in the media, such caution is often thrown to the winds. The past year has seen the trumpeting of a "gene for happiness," a "kindness gene" and a "believer gene." It is not even a question of education, but "genes are to decide" if you are a "caring person." Genetic testing websites assure us that "your genes are a road-map to better health," and we all know that road-maps are fixed. Small wonder that there is a creeping genetic fatalism around that subverts the idea of personal responsibility.

Fatalism in itself impacts on human behavior. Studies have shown that subjects exposed to the writings of authority figures doubting free-will are then more likely to cheat. Conversely, workers convinced of the reality of free-will are rated higher in the work-place than those whose beliefs tend more towards determinism.

The reality is that recent genetics research has continued to move steadily away from any notion of genetic fatalism, highlighting the sheer complexity of the genome, and providing some fascinating examples of the ways in which our choices impact upon our own genomes. There is no gene "for" any complex human trait because in fact genes encode proteins or other types of information-containing molecules, and thousands of genes collaborate together during human development in interaction with the environment to generate the unique human individual that each person represents. Those requiring an introduction for the non-specialist are referred to "The Language of Genetics."

Epigenetics adds further layers of variation and complexity. This refers to the chemical modifications of the DNA that cause genes to be switched on or off. It is such epigenetic modifications that generate the 220 specialized tissues of our bodies. Such acquired changes can even be inherited across several generations, certainly in plants and animals, and maybe in humans as well. In choosing to smoke, drink in excess, or take drugs, we also choose to modify our genomes.

So it turns out that even identical twins are not really genetically identical, developing different profiles of epigenetic modification as they go through life. This no doubt contributes to the otherwise surprising result that the age of death of identical twins, who share identical genomes, is comparable with that observed in non-identical twins, whose genomes are as different from each other as any two sibs. In one study of 184 pairs of twins in Spain, the difference in the age of death between the identical twin pairs was seven years on average, but such averages hide the fact that the age differences ranged from a couple of weeks to eighteen years. In the case of the non-identical twins, the difference in age at time of death was nine years, and the range was three to nineteen years. So there was really not that much in it.

What would happen if there was a genetic marker that identified nearly everyone in prison, marking them out as genetically distinct from half the world's population? What would that do to our ideas about genetic fatalism and convictions about moral responsibility? As it happens that marker already exists. Out of 131 countries worldwide, an average of 96 percent of the prisoners are male and, in this case, no complicated genetic studies are needed to know that the genetic marker that identifies this population is the Y chromosome. So universal is the correlation between the Y chromosome and criminality that we can safely say that no other genetic correlation will ever be found between a variant genome and criminality that surpasses this one. And yet we still hold nearly all males responsible for their criminal actions and put them in jail as soon as they're convicted. Furthermore, we note that most people who possess a Y chromosome go through life without committing a crime. So having a Y chromosome, with its unique set of genes, does not "determine" human criminality, although clearly we cannot go to the opposite extreme and say that it is completely irrelevant for patterns of human behavior.

The point in citing such examples is not to suggest that our genomes have nothing to do with our lives. They certainly do, not least in their significant contributions to our personality differences. The point rather is that the latest results in genetics provide no grounds for fatalism, instead highlighting the richness and diversity of the human population, and our own moral responsibilities, including the challenge to be good stewards of our genomes.

An argument for the existence of God this is not. But for those of us whose world-view is shaped by the conviction that we humanity are made in God's image, it is good to know that the latest genetics is consistent with such a perspective.

With his compelling personal story of becoming England’s “most reluctant convert,” his towering intellect, and his inimitable eloquence, American evangelicals’ lionization of Lewis is certainly understandable.² But when we attempt to lionize people we often ironically end up taming them, paring their claws so that our heroes and our preconceptions can safely cohabitate in our imaginations. But Lewis is no safer a lion than Aslan, and he will not go quietly into our tidy evangelical boxes. To be frank, American Evangelicalism’s infatuation with Lewis is in many respects somewhat odd. For here is a pathologically populist movement with a penchant for Big Tent Revivalism, an obsession with liturgical innovation, a deep-seated suspicion of ecclesiastical tradition, and a raw nerve about the doctrine of justification, falling head-over-heels for a tweed-jacketed, Anglo-Catholic Oxford don—a curmudgeonly liturgical traditionalist who was fuzzy on the atonement, a believer in purgatory, and, as we shall see, whose views on Scripture, Genesis, and evolution position him well outside of American Evangelicalism’s standard theological paradigms. All of that is to say that Lewis was not “just like us”—any of us—and if we would do him justice, we must be prepared to be surprised by Jack.

In what follows, I would like to look at three areas relevant to faith and science discussions where Lewis’s stated views might be surprising for his American Evangelical admirers—namely, his views on Scripture generally and Genesis in particular, his views on Adam and the doctrine of the Fall, and his views on evolutionary science and the myth of ‘Evolutionism.’

Reflections on the Scriptures: Lewis on the Bible, Myth, & Fact

Lewis derived his theological understanding of the Bible from his reading of Scripture, his intimate knowledge of the Church Fathers and the Medieval Doctors, and also from his awareness of modern biblical scholarship. While Lewis was regularly critical of Modernist biblical scholarship’s naturalistic dismissal of the miraculous, its pedantry, literary tin-ear, and over-eagerness to conflate Jesus’ story with the stories of pagan mythologies (he had precious little patience for Rudolf Bultmann, for instance ), he was not at all given to the knee-jerk reactionary Fundamentalism which has held so much sway in American Evangelical culture. In fact, Lewis incorporated many of the more well-supported conclusions of modern biblical criticism into his theology of Scripture, not least critical opinions about the historicity of much of the Old Testament. In good Anglican fashion, Lewis creatively drew upon the deep resources of the Church’s grand Tradition in order to think through the contemporary problems posed by modern critical scholarship. Here I wish to focus on three features of Lewis’s theological conception of Scripture—his understanding of the Bible as being incarnational and sacramental in character, and Christotelic in focus—before turning to his theological reading of Genesis 1-3.⁴

Inspiration and Incarnation

According to Lewis, the Bible is both a vessel of the divine Word and also a profoundly human collection of documents. In his longest, most substantive piece on Scripture, chapter XI of Reflections on the Psalms, Lewis frames a thoroughly incarnational understanding of the Bible:

The human qualities of the raw materials show through. Naïvety, error, contradiction, even (as in the cursing Psalms) wickedness are not removed. The total result is not “the Word of God” in the sense that every passage, in itself, gives impeccable science or history. It carries the Word of God; and we (under grace, with attention to tradition and to interpreters wiser than ourselves, and with the use of such intelligence and learning as we may have) receive that word from it not by using it as an encyclopedia or an encyclical but by steeping ourselves in its tone or temper and so learning its overall message.⁵

Lewis’s reference to “[the] human qualities” of the Bible’s “raw materials” is suggestive. As Peter Enns puts it in his book Inspiration & Incarnation: Evangelicals and the Problem of the Old Testament, the Incarnation of the Son and the inspiration of Scripture are “analogous.”⁶ Lewis clearly agrees. He goes on in the chapter to articulate a theology of Scripture precisely in incarnational terms:

For we are taught that the Incarnation itself proceeded “not by the conversion of the godhead into flesh, but by taking of (the) manhood into God”; in it human life becomes the vehicle of Divine life. If the Scriptures proceed not by conversion of God’s word into literature but by taking up of a literature to be the vehicle of God’s word, this is not anomalous.⁷

According to Lewis, the means whereby God gives us Scripture is not by faxing us transcripts of inner-Trinitarian dialogue direct from Heaven, but rather, on analogy with the Incarnation, by taking up very human literature and utilizing it to communicate His Divine life to us.

“We might have expected, we may think we should have preferred, an unrefracted light giving us ultimate truth in systematic form—something we could have tabulated and memorised and relied on like the multiplication table.”⁸ But God has instead deigned to give us a very human book, just as He deigned to send us a fully human Savior. Lewis makes this point most poignantly in his Introduction to J.B. Phillips’s Letters to Young Churches where he writes:

The same divine humility which decreed that God should become a baby at a peasant-woman’s breast, and later an arrested field-preacher in the hands of the Roman police, decreed also that He should be preached in a vulgar, prosaic and unliterary language. If you can stomach the one, you can stomach the other. The Incarnation is in that sense an irreverent doctrine: Christianity, in that sense, an incurably irreverent religion. When we expect that it should have come before the World in all the beauty that we now feel in the Authorised Version we are as wide of the mark as the Jews were in expecting that the Messiah would come as a great earthly King.⁹

For Lewis, God’s work in the inspiration of Scripture not only communicates but also emulates God’s humble, self-effacing work in the Incarnation. If the heart of Christianity, “an incurably irreverent religion,” should be the Incarnation, “an irreverent doctrine,” then it ought to come as no surprise that that doctrine should be most fundamentally communicated via an irreverent book.

A corollary of Lewis’ incarnational and sacramental view of Scripture is that when it comes to studying the Scriptures we must be prepared to be surprised. Lewis warns against “the Fundamentalist’s” procedure of attempting to frame our ideas of Scripture a priori, deducing parameters for what the Scriptures can and cannot be from our preconceptions about God. Lewis thinks such an approach to be a nonstarter:

[There] is one argument which we should beware of using…: God must have done what is best, this is best, therefore God has done this. For we are mortals and do not know what is best for us, and it is dangerous to prescribe what God must have done–especially when we cannot, for the life of us, see that He has after all done it.¹⁰

Instead, says Lewis, we should take a humble, a posteriori approach, looking and seeing just what kind of book it is that God has actually given us before making grand doctrinal declarations. “To a human mind,” Lewis recognizes, an incarnational Bible “seems, no doubt, an untidy and leaky vehicle.”¹¹ But it appears that this is what God has given us, and we must trust that God knows what He is doing. As Lewis says, “Since this is what God has done, this, we must conclude, was best.”¹²

Myth Became Fact

For Lewis, the Word is also like the sacrament. Just as ordinary water, bread, and wine are taken up into and become conduits for and communicators of the Divine life that we so desperately need, so, also, all-too-ordinary human writings are taken up into and become conduits for and communicators of the Divine life and word. In Lewis’s view, we must receive the Divine word by approaching Scripture in a sacramental manner. We “receive that word,” as Lewis says, again, “not by using [Scripture] as an encyclopedia or an encyclical but by steeping ourselves in its tone or temper and so learning its overall message.”¹³ For Lewis, at least when it comes to the Old Testament, receiving the Word means more than simply paying critical attention to the surface meaning of the text, the sensus literalis. Instead, we must press beyond the surface to the sensus plenior, to the “second sense” of the Old Testament, namely, Christ Himself. “It is Christ Himself, not the Bible, who is the true word of God,” Lewis once wrote in a private letter. “The Bible, read in the right spirit and with the guidance of good teachers, will bring us to Him.”¹⁴ While such Christological sensus plenior interpretation may have fallen out of favor with many Protestants (to say nothing of thoroughgoing Modernist historical-critics), Lewis believes that “[we] are committed to it in principle by Our Lord Himself.”¹⁵ Citing Jesus’ words to His disciples on the road to Emmaus, Lewis argues that Christ “accepted—indeed He claimed to be—the second meaning of Scripture.” Citing a litany of Dominical sayings and New Testament texts, Lewis is clear that Christ is mysteriously the true spiritual center, climax, coherence, sum, and substance of the Old Testament Scriptures.¹⁶

Lewis stands in good company in thinking along these lines. The “good teachers” from which Lewis learned this hermeneutic are undoubtedly Aquinas, Bernard of Clairveaux, Augustine, Origen, and Irenaeus, not to mention the Apostles and Christ Himself. In short, Lewis is standing within the mainstream tradition of pre-Reformation theological interpretation. But Lewis is not simply striking a traditionalist posture. Like a scribe trained for the Kingdom, he is prepared to bring forth treasures new and old. By positioning himself within the grand tradition of pre-modern theological interpretation, Lewis frees himself to follow his highly-attuned modern literary-critical instincts regarding the historicity of much of the Old Testament while simultaneously upholding both a robust belief in the historicity of the Incarnation and a vital theological hermeneutic. He writes:

The earliest stratum of the Old Testament contains many truths in a form which I take to be legendary, or even mythical—hanging in the clouds, but gradually the truth condenses, becomes more and more historical. From things like Noah’s Ark or the sun standing still upon Ajalon, you come down to the court memoirs of King David. Finally you reach the New Testament and history reigns supreme, and the Truth is incarnate. And “incarnate” here is more than a metaphor. It is not an accidental resemblance that what, from the point of view of being, is stated in the form “God became Man,” should involve, from the point of view of human knowledge, the statement “Myth became Fact.”¹⁷

He sets up the above paragraph by saying, “[The Christian story] is like watching something come gradually into focus; first it hangs in the clouds of myth and ritual, vast and vague, then it condenses, grows hard and in a sense small, as a historical event in first century Palestine.”¹⁸ Apart from the Incarnation, then, much of the Old Testament would be but “myth,” “ritual,” and “legend.” These elements of the Old Testament only become tangible historical “Fact,” for Lewis, in the person and work of Christ.

Next time, Williams looks at how this understanding of Scripture framed Lewis' reading of Genesis 1-3.

Note

1. C.S. Lewis, A Grief Observed, (San Francisco: Harper Collins, 2001), 66
2. See Smietana, Bob, “C.S. Lewis Superstar: How a reserved British intellectual with a checkered pedigree became a rockstar for evangelicals,” http://www.christianitytoday.com/ct/2005/december/9.28.html
3. “Through what strange process has this learned German gone in order to make himself blind to what all men except him see?,” wrote Lewis in “Modern Theology and Biblical Criticism,” in Walter Hooper, ed., Christian Reflections (Grand Rapids: Eerdmans, 1995), 156
4. I owe the word “christotelic” to my teachers at Westminster. See especially the discussion in Peter Enns’ Inspiration and Incarnation: Evangelicals and the Problem of the Old Testament, (Grand Rapids: Baker Academic, 2005)
5. Lewis, Reflections on the Psalms, (San Diego: Harcourt Inc., 1986), 111-12
6. See note xii above.
7. Lewis, Reflections on the Psalms, 116
8. Ibid, 112
9. Lewis, “Modern Translations,” in God in the Dock, (Grand Rapids: Eerdmans, 1970), 230
10. Lewis, Reflections on the Psalms, 112
11. Ibid
12. Ibid, 113
13. Ibid, 112
14. Lewis in a letter, 8 November, 1952, in W.H. Lewis, ed., Letters of C.S. Lewis, (New York: Harcourt Brace Jovanovich, 1966), 247 cited in Martindale and Root, The Quotable Lewis, 72
15. Lewis, Reflections on the Psalms, 117
16. Ibid, 117-19
17. Lewis, “Is Theology Poetry?,” in The Weight of Glory and Other Essays, (New York: Harper Collins, 2001), 129
18. Ibid

Behe and IC

Since we have previously explored Behe’s idea of irreducible complexity in an entire series, we will not revisit it here in great detail. It is important, however, to reemphasize how Behe defines irreducible complexity (IC). As we noted in the first part of that series, Behe frames his ideas on IC as a counter to Darwin’s ideas of gradualism.

For Behe, the argument for IC is a critique of gradual evolutionary processes, of the kind that Darwin saw as necessary for his theory to hold. When Behe introduces and defines IC in his book Darwin’s Black Box, he has a key quote from Darwin on gradualism explicitly in view:

Darwin knew that his theory of gradual evolution by natural selection carried a heavy burden: "If it could be demonstrated that any complex organ existed which could not possibly have been formed by numerous, successive, slight modifications, my theory would absolutely break down."

It is safe to say the most of the scientific skepticism about Darwinism in the past century has centered on this requirement… critics of Darwin have suspected that his criterion of failure had been met. But how can we be confident? What type of biological system could not be formed by “numerous, successive, slight modifications”?

Well, for starters, a system that is irreducibly complex. By irreducibly complex I mean a single system composed of several well-matched, interacting parts that contribute to the basic function, wherein the removal of any one of the parts causes the system to effectively cease functioning. An irreducibly complex system cannot be produced directly (that is, by continuously improving the initial function, which continues to work by the same mechanism) by slight, successive modifications of a precursor system, because any precursor to an irreducibly complex system that is missing a part is by definition nonfunctional. An irreducibly complex biological system, if there is such a thing, would be a powerful challenge to Darwinian evolution.

(Darwin’s Black Box, p. 39)

The definition of an IC system is thus straightforward: it is a matched group of components, where all the components are necessary for the function of the system. The necessity of each component can be demonstrated by attempting to remove it – if the system no longer works if even one component is removed, it is by definition IC.

Behe and exaptation

The standard response to Behe’s argument from IC is to discuss the evolutionary concept of exaptation: that new systems and functions are cobbled together from components that have functional roles in other systems already present in the cell. Behe discusses, and ultimately dismisses this idea in Darwin’s Black Box as follows:

In Chapter 2 I noted that one couldn’t take specialized parts of other complex systems (such as the spring from a grandfather clock) and use them directly as specialized parts of a second irreducible system (like a mousetrap) unless the parts were first extensively modified. Analogous parts playing roles in other systems cannot relieve the irreducible complexity of a new system; the focus simply shifts from “making” the components to “modifying” them. In either case, there is no new function unless an intelligent agent guides the setup.

So for Behe, two points are clear: parts selected for function in one system cannot be exapted for use in other systems since they would require too many modifications; and the emergence of a new function is the indication that an intelligent agent is guiding the process.

Behe has responded to my previous posts to claim that the tandem duplication event that brought about the Cit+ actualization event should not be considered a gain-of-FCT mutation under his criteria:

The gene duplication which brought an oxygen-tolerant promoter near to the citT gene did not make any new functional element. Rather, it simply duplicated existing features. The two FCTs comprising the oxygen tolerant citrate transporter locus -- the promoter and the gene -- were functional before the duplication and functional after. I had written in my review that one type of mutation that could be categorized as a gain-of-FCT was gene duplication with subsequent sequence modification, to allow the gene to specialize in some task. Venema thinks the mutation observed by Lenski is such an event. He has overlooked the fact that there was no subsequent sequence modification; a segment of DNA simply tandemly duplicated, bringing together two pre-existing FCTs.

As an aside, quibbling over whether this mutation constitutes a “genuine gain-of-FCT” mutation is not my purpose here, since the definition is Behe’s to define, and I am not aware of anyone else in the scientific literature who uses Behe’s definitions. That said, I consider it passing strange to claim that a series of events that produced a gene that has a new sequence and functional properties distinct from either of its component parts does not constitute the production of a new “functional coded element.” If nothing else, it is a functional coded element that has not previously existed, cobbled together from parts of other functional coded elements, displaying new, adaptive properties. If according to Behe’s definition that’s not “new” or a “gain” then I guess it’s not, but that seems to me to torture the words “new” and “gain” beyond recognition. But I digress.

The important point for our purposes, however, lies elsewhere. Note carefully how Behe describes the Cit+ actualization event. By dividing the new aerobic citrate transporter gene into two previously existing FCTs, Behe is describing an exaptation event. The one FCT (the aerobic promoter) starts off as a necessary component of a gene transcribed when oxygen is present. As such it is under selection for that function, which has nothing to do with expressing a citrate transporter. The second FCT (the citrate transporter amino acid coding sequence) is under selection to be a citrate transporter, which has nothing to do with the function of the gene the promoter comes from. The Cit+ actualization event, then, exapts these two FCTs by placing them together to create a new function (which Behe does not mention).

And here’s the kicker: the new system (expression of the citrate transporter when oxygen is present) requires both FCTs in order to work. It has become a system of “well matched, interacting parts that contribute to the basic function” (i.e. transporting citrate in the presence of oxygen) “wherein the removal of any one of the parts causes the system to effectively cease functioning.”

In other words, it is a new IC system – a small and relatively simple system, yes, but nonetheless IC. Now, I’m fairly sure that Behe would not define this system as IC, since the documentation of an IC system evolving would seriously undermine his thesis. I am interested, however, in how he will handle this development, on two fronts. First, he would need to explain specifically why two exapted FCTs that are required together for a basic function does not constitute an IC system (if indeed he wishes to preserve his definition). Secondly, given that he allows for exaptation in this case, he needs to explain how exaptation is not a threat to IC in general. In Darwin’s Black Box he disallows exaptation altogether, but that option is no longer on the table.

In the next post in this series, we’ll continue to explore the evidence for exaptation as a means to build new FCTs, and go on to examine the implications of this evidence for Douglas Axe’s proposed limit to evolutionary mechanisms.

For further reading:

Blount, Z.D., Barrick, J.E., Davidson, C.J. and Lenski, R.E. (2012). Genomic analysis of a key innovation in an experimental Escherichia coli population. Nature 489; 513- 518.

Michael J. Behe, Darwin’s Black Box: The Search for the Limits of Darwinism (New York: Free Press, 2006).

Michael J. Behe, The Edge of Evolution: The Search for the Limits of Darwinism (New York: Free Press, 2007).

Michael J. Behe (2010). Experimental evolution, loss-of-function mutations, and “The first rule of adaptive evolution”. The Quarterly Review of Biology 85(4); 419-445.

To say, “I believe in the Church” is to embrace and live into a reality that precedes us, encompasses us, and continues beyond us. Indeed, if we are to truly be the Church in the present, I believe that it is incumbent on us to listen to those who have gone before us, and recognize that our own “here and now” is not the whole of the Christian story. Moreover, paying attention to the voices in the history of the Church can reveal to us our own contemporary blindfolds and assumptions, and might even enable us to approach Scripture with fresh eyes.

As a case in point, over the next three posts I’d like to walk us through a number of what I call “pre-modern” church fathers’ readings of Genesis 1 so that we might hear how Christians have read this text across the last 1600 years. For, while exploring the history of interpretation of any biblical text can teach us several important things, the biblical account of creation in Genesis 1 is a particularly instructive case.

Many, many Christian readers interpreted Genesis 1 during the early, medieval and Reformation eras of the church, but my survey focuses on the accounts given by Origen, Augustine, Aquinas, Luther, and Calvin. Every one of these church fathers held to at least two strong, shared assumptions: first and foremost, they all believed Scripture is the inspired Word of God—an infallible revelation given by God to reveal God and God’s truths for the church. I will return to this point later to show that what these readers meant by “infallible” is not necessarily the same as what many modern readers mean today, but the fathers’ firm conviction in the absolute trustworthiness of the biblical text is something contemporary evangelicals have in common with our predecessors in the faith. Secondly, they all asserted that any good reading of Scripture has the ultimate goal of edifying the Church. A faithful reading is performed in, with and for the Church, for the Church’s strengthening and/or repentance.

Beyond these two essential points about the text itself, all five of these church fathers focused upon several shared theological teachings in their readings of Genesis 1:

• First, the world is created. In other words, the world is not eternal; it has a beginning and an end.
• Second, God created the world.
• Third, God created the world from nothing. This is the Christian doctrine of creation ex nihilo.
• Fourth, the Creator is also Trinity: Father, Son, and Holy Spirit.

The first three of these beliefs—the world is created, God created the world, and God created the world from nothing—set up a clear distinction between God the Creator and created creatures who depend upon God for their creation—that is, the supreme distinction between Creator and creature. This distinction is necessary to demonstrate that only God is God; there is no other God. There is no room for the world or anything else to claim existence outside of or beyond God. God is the beginning of all existence.

Finally, the church fathers’ agreement that Genesis 1 teaches us about God’s Trinitarian nature of Father, Son, and Holy Spirit gives us a sense of the complete and self-sufficient yet still relational quality of the Creator. In sum, Origen, Augustine, Aquinas, Luther, and Calvin agreed that the account of creation in Genesis 1 tells us in some kind of literal way how the world came to exist, but equally that Gen 1 is intended to teach us these key theological truths.

An infinite source of wisdom

One of the key issues debated amongst these early readers of Genesis 1 was a question of methodology: how should one read the text? The pre-modern Church held firmly to the belief of both the divine inspiration of Scripture and Scripture as an infinite source of God’s wisdom, revelation and teaching. This meant that the pre-modern Church believed that there was not just one singular correct meaning of a biblical text, but that there were many possible faithful readings of any given text.

Such an assertion involved the belief that since God is infinite, so also is God’s Word infinite. To assume that there is only one singular correct meaning of Scripture is in essence to “box God in” or offend the absolute sovereignty of God—namely, limiting what God may teach or say through God’s own very Word. Hence, from very early on in the Church’s history, the church held that Scripture has literal and spiritual meanings. The late-2nd / early 3rd-century church father Origen, for one, was a keen proponent of the spiritual reading of Scripture. He maintained that Genesis 1 has both a literal meaning and a spiritual or allegorical meaning. He wrote, “There is certainly no question about the literal meaning, for these things are clearly said to have been created by God,” but then he continued, “but it is also profitable to relate this text in a spiritual sense.”¹

The spiritual meaning of the text, according to Origen, is that the creation account is not simply about how the world was created, but it also sets forth the Christian’s journey in faith from infancy to maturity. Or, put another way, the days of creation are an illustration of the ethical journey of Christians toward righteousness. Thus according to Origen, for example, the separation of waters from the dry land (in verse 9) points to the call for the Christian to seek heavenly things rather than earthly things.² Though they may be literally the creation of the sun, moon and stars, the lights in verse 14’s “Let there be lights” spiritually signify Christ and his Church—Christ who is the “light of the world” and the church who has been called to reflect this light into the world (John 8:12).³ Hence, though Origen affirmed the literal reading of this text as teaching that God created the world, the weight of his focus fell upon reading Genesis 1 as a road map for the Christian’s journey in righteousness towards becoming more Christ-like.

The renowned late 4th/early 5th-century church father Augustine also believed in reading Genesis both literally and spiritually, though he placed more emphasis on the literal reading than did Origen. Augustine commented on Genesis 1 several times, including Against the Manichees and A Literal Interpretation of Genesis. In the both of these accounts, his primary intention was to set forth that the world is created by God out of nothing—hence light vs. dark or good vs. evil cannot be rightly believed to be dualistic entities. In fact, God is the only Supreme Being, and God created everything else out of nothing—not out of God’s self (which leads to pantheism or pan-entheism), nor out of something else existing alongside God (which would lead to dualism or the belief that there are two or more equal entities that can claim to be gods). All of these theological teachings were set forth to deliberately counter the heretical teachings of the Manicheans in Augustine’s day. Hence, one might argue that Augustine’s “literal” reading of Genesis was very much focused upon certain theological teachings of Genesis 1.⁴

But Augustine did not stop there. He also provided a number of ways in which the literal words of Genesis 1 may point to a spiritual meaning. For example, Augustine writes that the 7 days of creation represent the 7 ages of the world. Moreover, Augustine—much like Origen—also read the 7 days of creation in terms of the Christian’s spiritual journey in faith. Thus, Day 1 is the light of faith, day 2 is a time of learning and discernment; day 3 is the separation of heavenly and earthly things; day 4 is development in spiritual knowledge; day 5 involves good works; day 6 is being made in the image of God to gain mastery over carnal desires, and day 7 is a day of perpetual rest.⁵

Key theologians of the early church (such as Origen and Augustine, as we’ve discussed) read Scripture with multiple senses and meanings—with a literal sense and multiple spiritual senses. However, not all fully agreed with this methodology. Though most all would certainly hold to multiple senses of Scripture, some readers insisted upon a more profound attention to the literal sense, and the use of the literal sense to help restrain or hold in check the possible spiritual readings. Such 3rd- and 4th-century Church fathers, as St. Basil the Great, John Chrysostom, St. Ambrose, and Theodore of Mopsuestia insisted upon a much more restrained literal reading of Genesis 1.⁶

Yet even those who insist upon a more literal—or more historical—interpretation of Genesis 1 still contended that the primary purpose of any reading was to edify the Church, which entails setting forth the key theological teachings of Genesis 1, rather than focus on the material specifics. Again, such teachings include that the world is created, that God create the world out of nothing, and that the creation account demonstrates the great order and harmony of creation as a testimony of the God’s glory, beauty, and goodness.⁷

More than one thousand years later, 16th-century Protestant Reformers Martin Luther and John Calvin strongly argued for a literal reading of Genesis 1 over and against an allegorical one. Luther wrote, “God’s purpose is to teach us not about allegorical creatures and an allegorical world, but about real creatures and a visible world apprehended by the senses.”⁸ Calvin maintained, “For to my mind this is a certain principle, that what is here treated is the visible form of the world.”⁹

Yet Luther and Calvin also insisted that the central purpose of Genesis 1 is to set forth the theological teachings that the world is created, that God created the world out of nothing, and that creation demonstrates God’s providence, divine purpose, goodness and benevolence.¹⁰ While these historical readers do not all agree on whether Genesis 1 should be read allegorically, what becomes crystal clear is that for all of these interpreters, in one way or another, a “literal” reading of Genesis 1 retains as its focus the theological teachings of the text. In our next installment, we’ll look briefly at some of the difficulties our expositors perceived in Genesis 1 when they did attempt to read it literally.

Notes

1. Origen, Homilies on Genesis, 60.
2. Origen, 49, 50.
3. Origen, 53-55.
4. Augustine, Against the Manichees, 57, 58 and Genesi ad litteram, 145-46.
5. Augustine, Against the Manichees, 83-88, 89-90. The seven ages are the following: Day 1 = the infancy of the world that stretched from Adam to Noah; Day 2 = childhood, stretching from Noah to Abraham; Day 3 = adolescence, encompassing the biblical history from Abraham to David; Day 4 = the age of youth, from David to the Babylonian captivity; Day 5 = youth to old age, stretching from the Babylonian Exile to the first advent of Christ; Day 6 = old age, the coming of Christ until the 2nd coming; and Day 7 = on the even and including the 2nd coming of Christ.
6. St. Basil the Great, Hexameron 9.1.
7. Ibid, 7.6, 1.7-9, 1.2-4.
8. LW 1:5.
9. John Calvin, Commentary on Genesis, 79.
10. LW 1:3, 4, 10, 18, 36, 39, 47, 49. Calvin, Commentary on Genesis, 70, 89, 80-82, 88.

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?”

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.”

Early this month, researchers from ENCODE released more than thirty papers presenting their findings. During a Science magazine online chat, the project’s data coordinator, Ewan Birney, explained the outcome:

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.

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.

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.

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.

According to the abstract of one of the lead papers from Nature, 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 some biochemical function. As a Science news article put it, these 30 papers “sound the death knell for the idea that our DNA is mostly littered with useless bases.”

The pro-Intelligent Design organization The Discovery Institute has heralded the discovery as the “demise of junk DNA.” Casey Luskin writes for their blog Evolution News:

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.

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.”

So with all this in mind, is ENCODE a stunning victory for ID, as Luskin believes? Bryan College biologist Todd Wood thinks not. He writes, “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.”

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—through the elegant processes of evolution, not in opposition to them.

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 post on our site, including a striking comparison between 29 different mammal genomes and the human genome). In fact, another ENCODE researcher participating in the Science magazine chat, John A. Stamatoyannopoulos of the University of Washington School of Medicine, thinks the findings align beautifully with evolutionary theory:

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.

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.

A special thanks goes to Darrel Falk, Mark Sprinkle, Kathryn Applegate, Dennis Venema, and Tom Burnett for their contributions to this post.

It’s true that physics sounds scary to many people, and it can indeed be a difficult topic to learn. Yet I’ve always loved physics (my degrees are in physics rather than astronomy), because of the way that mathematical equations can describe and predict so much of what we see in the world around us. One reason I got into astrophysics is because the universe contains so many bizarre situations that we can’t reproduce on earth, like ultracold, or extremely high density, or extremely high magnetic fields. It’s a fun challenge to figure out which physical process will be the most important when the situation is so dissimilar to everyday experience. But if the word “physics” makes you shrink in distaste or fear, don’t worry. For the rest of this article, we’ll focus on a more friendly topic: astronomy.

In the last decade or two, our knowledge of the universe has grown dramatically as many new telescopes and spacecraft have come online. In this essay, I’ve selected some of my favorite recent astronomy photographs to share with you. As a professional astronomer and a Christian, I feel God has called me to share these wonders with the Church. Many times, these new discoveries are presented without any mention of God, and sometimes in a context of overt atheism. I want to share these things with you in a Christian context, with God as their creator.

The Milky Way

Have you ever seen the Milky Way? If you live in a rural area, you may have seen it many times. If not, it may have been a dramatic surprise when you first saw it while camping or traveling. On a clear night out in the country, the sky is strewn with brilliant stars—many more stars than you can see under city lights.The faintest stars form a creamy, smoky band from horizon to horizon. Our galaxy contains billions of stars, and thousands of those stars are visible to the naked eye. The stars appear in a band across the sky because we are viewing our galaxy edge-on, like looking at the edge of a dinner plate.

When David looked up at the night sky over Israel thousands of years ago, he may have seen the Milky Way, or a comet, or simply the brilliance of the full moon. Whatever the sky looked like that night, it inspired him to sing:

The heavens declare the glory of God; the skies proclaim the work of his hands. Day after day they pour forth speech; night after night they reveal knowledge. They have no speech, they use no words; no sound is heard from them. Yet their voice goes out into all the earth, their words to the ends of the world. (Ps. 19:1-4a)

The heavens are displaying the glory of God for all people to hear, proclaiming their message to people of every language, tribe, and nation. Just about anyone who looks up at the night sky feels a sense of wonder. Yet as Christians, we feel more than a vague sense of awe; we know the Creator of the heavens personally, as our own loving Father.

The heavens declare more than God’s glory. The universe is God’s revelation of himself to us, and teaches us about his character. As the Belgic Confession says about “The Means by Which We Know God,”

We know him by two means: First, by the creation, preservation, and government of the universe, since that universe is before our eyes like a beautiful book in which all creatures, great and small, are as letters to make us ponder the invisible things of God: his eternal power and his divinity, as the apostle Paul says in Romans 1:20. Second, he makes himself known to us more openly by his holy and divine Word, as much as we need in this life, for his glory and for the salvation of his own. (Article 2)

The natural world teaches us about God’s glory, power, divinity, faithfulness, extravagance, immensity, love, and other attributes. God’s special revelation in scripture is our primary place to learn of God’s character (Ps. 19 goes on to talk about special revelation in vs. 7), but the natural world can bring the message to our senses in a powerful way beyond mere words on a page. The Holy Spirit can use the natural world to get the message past our hardened or weary hearts. Nature illustrates these attributes in ways that enlarge our imaginations to appreciate afresh the glory of God.

The Sun

The Solar Dynamics Observatory was launched into space in 2010, the latest of several spacecraft to photograph the sun in detail. In Figure 2, the upper photo shows the face of the sun with a sprinkling of sunspots. The sun is powered by nuclear fusion reactions deep in its core which heat the hydrogen and helium gas till it glows. A sunspot is a place on the sun’s surface where the gasses are a bit cooler than the surrounding area, so that it glows less brightly and appears dark.

The lower photo in Figure 2 was taken the same day, but in X-ray light. X-rays are invisible to our eyes, but you have experienced them at the dentist’s office. There, the X-rays are produced by a machine, travel through the mouth, and are detected by film to reveal an image of your teeth. In this image, X-rays are produced by the sun, travel to the Solar Dynamics Observatory, and are detected by a camera to show an image of the sun. In X-rays, the sunspots are the brightest part of the image, not the faintest. If you look at the sunspot on the left edge, you can see bands of particles rising out of the sunspot in a looping path above the sun’s surface and falling back down on it. As the particles follow lines of magnetic field, they emit X-rays. The loops you see are not small—they are about the size of planet Earth! Because of modern spacecraft, telescopes, and cameras, we can see so much more in the heavens than what is visible to the naked eye. Thus, we are seeing more of what the heavens have to declare about God. In Psalm 19, David goes on to describe the sun:

In the heavens God has pitched a tent for the sun. It is like a bridegroom coming out of his chamber, like a champion rejoicing to run his course. It rises at one end of the heavens and makes its circuit to the other; nothing is deprived of its warmth. (vs. 4b-6)

If David had lived today, maybe he would have written about other properties of the sun, like the power of God as seen in nuclear reactions and looping magnetic fields. As it is, he makes two important points. One is the universal warmth of the sun, by which God provides for all life on earth. The other is the faithful path of the sun, day after day, unchanging year after year. In the book of Jeremiah, God promises his people that he will not break his covenant with them, any more than he would break his covenant with day and night and the fixed laws of heaven and earth (33:19-26). The sun is a persistent reminder, woven into our lives, of God’s faithfulness to his promises.

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.

The origins of human chromosome 2: a brief review

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):

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):

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.

We can also find further support for Option A, because it predicts a specific type of event, namely one that reduces chromosome number. Since loss 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.

Further evidence for a fusion event in the lineage leading to modern humans comes from comparing synteny, or gene locations and orders on chromosomes within modern great apes – an issue we have discussed here 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 last post 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.

Enter the Denisovans

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, here and here). Recently, a more detailed understanding of the Denisovan genome was published, and nested in the new information is the discovery that the Denisovans share the 46 chromosome set with the same fusion that we have. 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):

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).

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.

Implications for understanding our “becoming human”

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).

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.

Recently, an elegant and powerful experiment was done to further investigate a question of interest to many evangelicals: how is it that we are so different from our closest biological relative (the chimpanzee) when our DNA is so very similar? Even when using estimates that maximize the differences, our genomes are 95% identical. The conclusion, that I have discussed here in the past is that a dispersed set of numerous small changes can have large effects on the form and function of an organism. Of course, small changes are what evolution specializes in: tinkering here and there, one mutation at a time, as we have directly observed in laboratory experiments. Before we discuss how this pivotal new study was done, however, a brief review of how genes work is in order.

Review: gene structure and function

If you’ve been following the ongoing Understanding Evolution series here at BioLogos, you will recall that we discussed gene structure and function not long ago, in the context of discussing non-functional DNA sequences (so-called “junk DNA”):

Genes have a typical structure (obviously simplified here somewhat). First off, there is the actual DNA sequence that specifies the protein product sequence (the so-called “coding sequence”, shown in blue). This sequence is usually broken up into segments in mammalian genes, and these sequences are spliced together when the DNA sequence of the gene is transcribed into a “working copy” called mRNA – a short duplicate of the code that can be used by the cell’s machinery to actually build the specified protein.

In addition to the actual coding sequences, other sequences are needed to tell the cell when and where certain genes should be transcribed into mRNA. Every cell in an organism has the same genes in their chromosomes, but not all are transcribed. Using different genes in different combinations is what makes cells take on distinct roles – for example, cells in your small intestine need different genes (for absorption of nutrients) than do cells of the immune system (for fighting off pathogens). Regulatory sequences make sure any given cell type has the right genes transcribed and made into protein products. Some of these sequences are part of the mRNA transcript (shown in red), and others are not transcribed but only part of the chromosomal DNA sequence (such as the “promoter” region that directs the enzymes responsible for making the mRNA transcript (shown in blue).

With this background in mind, we can now extend our understanding slightly further. DNA in cells is “packaged up” when not in use by winding it around a class of proteins called histones. This packaging keeps the DNA in a compact form, and it is useful in helping cells prevent genes they don’t need from being transcribed. For any given chromosome - which is one long strand of DNA – some regions will be packed away (and the genes there not transcribed), while other regions are unpacked (less tightly associated with histones) with the genes there actively undergoing transcription. The open regions allow for transcription because enzymes and other proteins needed for the process can gain access to the DNA there.

Comparing gene transcription across species at the genomic level

Because of the overwhelming similarity between the human and chimpanzee genomes (and the even greater similarity when examining only their protein-coding regions) it has long been hypothesized that changes in “where and when” genes are transcribed will be a major player in what makes our two species different (in contrast to the idea that we are different because of the relatively tiny changes in the coding regions of our genes). From an evolutionary point of view, there are a few ways to explore how differences in gene transcription arise once species go their separate ways, such as when our ancestors parted ways with our last common ancestor with chimps around 4-6 million years ago. The main idea is to compare the same cell type in both species: human skin cells versus chimp skin cells, for example. Determining what specific genes are transcribed (or not) in human cells and comparing the results to chimpanzee cells gives us an idea of how gene transcription differences arose in the two lineages since they last shared a common ancestor. The challenge, up until now, is that there was no easy way to indentify the changes in regulatory DNA that led to those differences in transcription. The problem arises because of the overwhelming similarities between our genomes: changes in transcription due to changes in DNA sequence are hard to find simply by looking for sequence differences, since in most cases the differences will be very small. There are also many small differences between our genomes that have no effect on gene transcription, so we cannot simply look for any difference at all. What we need is a way to identify which small changes led to differences in gene transcription.

Old hypotheses, new technology

Back in 2008, a method for addressing this issue was devised. As we have seen, DNA undergoing transcription is “unpacked” and accessible to enzymes. Researchers have long known about a certain enzyme, called DNAse I, that can cut exposed DNA but leave histone-packaged DNA alone. This means that DNA from any given cell type can be cut using this enzyme specifically at “DNAse I hypersensitive sites” (DHS’s) where regulatory DNA is unpackaged and a nearby gene is being transcribed. While this technique is decades old, what is new is a way to then go on to sequence the DNA next to each of these sites. This requires what is known as “next-generation” or “deep” DNA sequencing methods that can use a linker sequence to attach to the DNAse I cut sites and then amplify and sequence individual DNA fragments attached to the linker. Since we have the entire genome sequence of humans and chimps it is then trivial to take the sequencing results and map them to either genome. The results are a detailed map of what chromosome regions are unpacked and regulating transcription in each cell type. These maps can then be compared with related species across entire genomes.

It was only a matter of time before these powerful methods were applied to the human-chimp question, and the first results became available last month. The research group was of course interested in differences between the two species, and the results are fascinating. The researchers looked at several different cell types, and found similar results in all cases. The results for any given gene fall into one of several categories when compared to the human-chimp (H-C) last common ancestor:

• No differences in regulatory DNA relative to the H-C last common ancestor (1259 genes)
• Gain of regulatory DNA in humans relative to the H-C last common ancestor (836 genes)
• Loss of regulatory DNA in humans relative to the H-C last common ancestor (286 genes)
• Gain of regulatory DNA in chimpanzees relative to the H-C last common ancestor (676 genes)
• Loss of regulatory DNA in chimpanzees relative to the last common ancestor (211 genes)

While it was not surprising to find a significant percentage of unchanged genes, it was interesting to note the large percentage of differences in regulatory DNA, despite the overwhelming genomic similarity between the two species. Small changes had a large impact on gene regulation. The researchers went on to examine the new regulatory regions they had identified, and found that they showed evidence of being under natural selection. These mutations had not only brought change, but provided an advantage to their hosts.

These results underscore a few important points:

• Species become different because differences accumulate in both lineages once a common ancestral population splits into two. The differences we see in modern species are due to changes both species have accumulated over time.
• Tweaking the regulation of numerous genes appears to be a widespread mechanism for generating evolutionary novelty. Both gaining and losing regulatory sequences is common.
• These gains or losses in regulatory DNA require only very small changes at the DNA sequence level, but they can have profound impacts on how genes are transcribed.
• These changes appear to be widespread in genomes, and able to accrue in short evolutionary timescales.
• Small changes are exactly the sort of thing that evolution is known to be able to accomplish easily, one mutation at a time.
• These small changes bear the marks of natural selection, indicating that they were selected for as they arose.
• Anyone who wishes to call these differences “insignificant” will have to contend with the observation that the biological differences we observe between humans and chimpanzees are significant.
• Small, incremental changes at the genomic level fit nicely with the fossil evidence for human evolution, which, though fragmentary, indicates gradual changes in skeletal morphology over the same timescale.

Of course, this study is just the beginning, and future studies are sure to examine and compare additional cell types found in humans and our evolutionary cousins. These results have already added to the troubles of antievolutionary groups that wish to portray the differences between us as too great for evolutionary mechanisms to bridge. I suspect these troubles will only worsen in the coming years as these new techniques come into their own.

For further reading:

Shibata Y, Sheffield NC, Fedrigo O, Babbitt CC, Wortham M, et al. (2012). Extensive Evolutionary Changes in Regulatory Element Activity during Human Origins Are Associated with Altered Gene Expression and Positive Selection. PLoS Genetics 8(6): e1002789. doi:10.1371/journal.pgen.1002789

http://www.plosgenetics.org/article/info%3Adoi%2F10.1371%2Fjournal.pgen.1002789

This essay considers the meaning of another small word, but not one in Latin or Greek. This word appears in the Hebrew language in which the Old Testament was written. It is the word pronounced, mîn, that can be rhymed with “green.” In Modern Israeli Hebrew the word has taken on the meaning of “species.” This is also the traditional way in which is it translated in the Old Testament of Genesis 1. It appears in Genesis 1:11, 12, 21, 24, and 25. A survey of a variety of English translations (King James Version, New American Bible, New Revised Standard Version, English Standard Version, and New International Version) reveal that the translation “kind” or “kinds” is used.

Can we be more specific? Does the word imply a zoological classification such as the term “species” would in scientific discussions of the animal and vegetable kingdoms? It is always dangerous to apply modern concepts to ancient literature. The use of classificatory schemes provides a good example. The application of categories of knowledge in pre-Aristotelian writings invites misunderstanding as the means of viewing the world and its elements differed from the way we look at things today. This does not mean that communication is impossible; only that we need to remain especially cautious not to import our understanding of matters onto the ancient worldview of writers without approaching these questions carefully and critically.

In terms of ancient (or modern) literature, a word is best understood according to its usage in the writings in which it occurs. This suggests that context determines meaning. This is especially true where it appears multiple times in the same type of literature written from the same culture and general time period. The study of context is the primary determinant for understanding the definition of a word.

Secondarily, one may consider related words in the same literature. Because a Semitic language such as Hebrew is based on roots (usually of three consonants) that each generate verbs, nouns, and other particles of speech, words formed from the same root may provide additional understanding of the term we are considering.

The third area for study is where the same word occurs in comparative literature coming from similar, though not identical (which we consider in the first category), cultures and times. The Old Testament was written in Hebrew but we do not have much additional Hebrew writing preserved for us from the time when this part of the Bible was written. However, there are closely related Semitic languages that possess a wealth of literature and may contain our word in their writings. If so, it would be good to check this and see if there is a relationship there. At the same time, later Hebrew, written by Jewish scholars, may also use this word. It is of value to compare the usage here. This part of the study can confirm and refine our understanding of mîn, but it should not overturn clear contextual indications from the Old Testament usage itself.

Finally, we should note that, in the Old Testament, mîn does not appear by itself. Every one of its occurrences forms part of the same prepositional phrase. Thus our work is not complete when we have identified the contextual and comparative meaning of the word. Instead, we need to examine the usage of the term within this prepositional phrase. Such expressions can sometimes alter the meaning of the term. This is especially true in idioms, but also occurs in other common expressions.

Old Testament Context of mîn

The Hebrew term, mîn, occurs 31 times in the Old Testament. These occurrences are found in four contexts: the creation story of Genesis 1 (vv. 11, 12, 21, 24, and 25), the flood story (Genesis 6:20; 7:14), the lists of clean and unclean animals in Leviticus 11 (vv. 14, 15, 16, 19, 22, and 29) and Deuteronomy 14 (vv. 13, 14, 15, and 18), and the single occurrence in the prophet Ezekiel’s vision of the future river that will flow from the Jerusalem temple to the Dead Sea (Ezekiel 47:10).

The usage in Genesis 1:11 and 12 associates mîn with vegetation, especially those plants and trees that have seeds and bear fruit. These will form the basis for the food to be eaten by people, birds, and land animals in Genesis 1:29-30. There is no specification of mîn in terms of species or any more specific category than edible plants and fruit trees.

The same seems to be true in Genesis 1:21, where mîn appears alongside large and small sea creatures and birds with wings. The second and third days of creation in Genesis 1 describe God’s demarcation of three domains of the physical world: the sky, the seas, and the dry ground. On days five and six God fills these areas with life, with living creatures. For the sky and sea, the creatures are defined according to their general means of locomotion and not in any other way. Modern zoological classifications use criteria in addition to locomotion. Thus there are few clues that would connect mîn with any modern classification system.

The appearance of our term in Genesis 1:24 and 25 brings us to the fifth day when God fills the dry land with life. Here God creates three categories: livestock, wild animals, and creatures that crawl along the ground. In v. 24 the general category of all living animals on the ground is described with mîn; whereas in v. 25 each of these three categories receives this term. Thus the term can be used of more general and more specific “kinds” of animals within the same grouping.

The term recurs in Genesis 6:20 and 7:14, where it modifies individually the bird, the wild animal of the land, and the creature that crawls along the ground. In Genesis 7:14 livestock is added to those in the ark. It also is modified by mîn. Here the categories of animals resemble those in Genesis 1. From these “kinds” would come all the species that are found in nature. This confirms the broad usage of mîn but does not add new information.

The usage of mîn also occurs in the listing of unclean animals. It occurs in a list in Leviticus 11:14, 15, 16, 19, and 22; which closely follows the list in Deuteronomy 14:13, 14, 15, and 18. Only Leviticus 11:22 is separate. This list includes specific names of small wild animals, various birds, and insects (Leviticus 11:22). Although there is discussion and dispute regarding the specific identification of various of these animals, it is clear that they form subcategories of those types to whom the term mîn was applied in Genesis 1, 6, and 7. The resulting picture is thus that mîn applies to a variety of animal categories, both those more general and those more specific. While particular species may be described in Leviticus and Deuteronomy, that is certainly not the case in Genesis, where the categories of living creatures are much broader.

The remaining text with mîn is Ezekiel 47:10. Here the fresh water that will pour from the temple into the Dead Sea forms a natural habitat for fish that are mîn and are compared with those fish found in the Mediterranean Sea. As in Genesis 1:21, the picture is one of general creatures of the sea, rather than what anyone might identify as a particular species. Indeed, if the translation of the phrase in which mîn occurs is understood (following the New International Version) as, “The fish will be of many kinds,” then this could envision various species. However, such an interpretation is not explicit from the text itself.

Our survey of the usage of the term in biblical Hebrew suggests that it may describe all types of plants and animals, and this may include mîn in the broadest categories of living creatures: green plants with seed, fruit trees, birds, sea creatures, fish, wild land animals, domestic animals, and creatures that creep along the ground. It may also include specific categories as enumerated in Leviticus 11 and Deuteronomy 14. Thus mîn does refer to various kinds of living creatures without a predisposition as to how large a category is intended. Only context can tell us that. The term is applied only to living creatures as described in the Bible. It is never applied to people, abstract concepts, or nonliving objects.

In Part 2, Dr. Hess expands his analysis in by exploring closely related words in the Old Testament and by comparing how mîn is used in literature coming from similar cultures and times.

I am using the term in the same sense. Like Ramm, I don’t regard theistic evolution as a concordist view, even though some TE proponents like to say that evolution can be “harmonized” with Genesis. At the same time, Ramm completely rejected Price’s recent creation and Flood Geology, and he obviously did not consider that view to be a type of concordism either. Why not? On first glance, the YEC view might seem to fall within Ramm’s definition of concordism, and the authors of one of the books recommended in the first column in this series classify it as a type of concordism. However, the harmony sought by YEC proponents comes at the cost of entirely rejecting the standard geologic record, which they replace with Flood Geology. That isn’t what Ramm had in mind by seeking a “harmony.”

Often the concordist view is called “progressive creation,” another term that Ramm used with much approval: “We believe that the fundamental pattern of creation is progressive creation,” he wrote prominently in italics. Indeed, it is sometimes assumed that Ramm invented both terms, “concordism” and “progressive creation,” when in fact he did no such thing. If anything, the latter term is even older than the former, having been used to refer to an OEC interpretation of natural history for about two centuries. The first American author to use it may have been Benjamin Silliman, an evangelical who was appointed the first professor of natural history at Yale by another evangelical, Yale’s president Timothy Dwight. Silliman was the single most influential figure in American science during the nineteenth century. In his Outline of the Course of Geological Lectures Given in Yale College (1829), Silliman spoke of “the progressive creation, life, death and sepulture [fossilization], of animals and plants.” On another occasion he noted how the Bible describes “a successive creation of plants and animals, ending with man,” and that geology “proves this history to be true.”

Clearly, then, the concordist or progressive creationist view has been around for a long time. Let’s examine its main components.

Core Tenets or Assumptions of Concordism

(1) The Bible and science (mainly geology and astronomy) are BOTH reliable sources of knowledge about the origin of the earth and the universe. God has written two “books” for our instruction, the book of nature and the book of scripture. Since God is the author of both “books,” they must agree when properly interpreted.

If this strikes you as worded deliberately to sound like Galileo, you’re right—but only because so many proponents of the concordist view also have Galileo very much in their minds. The basic scheme is neatly depicted in this diagram:

Recall Galileo’s belief that the book of nature, written in the divine and unambiguous language of mathematics, should be used to help interpret the book of scripture, written in the richer but more ambiguous language spoken by the ordinary persons for whom its vital message of salvation was intended. When they accept the evidence for an ancient earth, Silliman and many other evangelical scholars right down to our own day believe they have merely applied Galileo’s logic to a different set of biblical texts.

(2) Scientific evidence, when properly interpreted, is consistent with the Bible, when properly interpreted.

Galileo again: because both “books” are written by the same Author, they must agree. As he said in his Letter to Christina, “the holy Bible can never speak untruth—whenever its true meaning is understood. But I believe nobody will deny that it is often very abstruse, and may say things which are quite different from what its bare words signify. Hence in expounding the Bible if one were always to confine oneself to the unadorned grammatical meaning, one might fall into error.”

What about those who interpret the book of nature? Can they ever be mistaken? Should they ever yield to those who interpret the book of scripture? Evolution was not the source of Galileo’s concerns, but concordists today would give the nod to scripture mainly when it comes to evolution—especially human evolution. Regardless of how much evolution they accept for other organisms, concordists hold strongly to the separate creation of Adam and Eve as the first human beings. They believe that Genesis 1 was intended to be at least broadly historical, even though it does not provide detailed scientific information.

Mainstream conclusions in geology and cosmology, however, are almost always accepted; indeed, Hugh Ross and some other OECs not only accept the “big bang” theory of the universe, they actively promote it as central to Christian apologetics, because it presents us with a universe that is not eternal and that appears to be exquisitely designed as a home for living creatures, including ourselves.

(3) The Bible does NOT tell us the age of the earth.

Two main concordist approaches to resolving the tension between Genesis and scientific dating of the earth have been popular since the mid-nineteenth century: the “day-age theory,” which still has numerous advocates (including Ross), and the “gap theory,” which is now nearly extinct. One hundred years ago, however, the gap theory was probably the more popular option among conservative Protestants, and it remained so until the 1960s and 1970s, when the rapid spread of Scientific Creationism all but relegated the gap view to the dust bin.

The Gap Theory

The gap theory posits a “gap” of untold length between “the beginning” of Genesis 1:1 and the first “day” of creation, starting with Genesis 1:3; the formless void of Gen 1:2 corresponds to this “gap.” Verse 1 refers to the original creation of the earth and the universe “in the beginning,” not to world as we now find it. The fossils represent creatures that populated the original creation. Current living creatures come from a second creation, after the “gap,” when God made them in six literal days, culminating in the creation of Adam and Eve just a few thousand years ago.

Although the creation of humanity matches the traditional biblical chronology—a major reason for the popularity of the gap theory in its heyday—the original creation cannot be dated from the Bible. Whether it happened 100 million years ago (as scientists thought around 1900) or billions of years ago (as scientists thought for much of the twentieth century), does not matter one bit to the Bible. Geologists can say whatever they wish about the age of the earth. The Scofield Reference Bible, originally published by Oxford University Press in 1909, taught the gap theory to generations of conservative Protestants in the English speaking world. The headings alone indicate Scofield’s endorsement of the gap theory, and he waited no longer than the second footnote to spell it out: “The first creative act refers to the dateless past, and gives scope for all the geologic ages.” (NOTE: the date “B.C. 4004" in the middle column refers to the start of the six days, not to “the beginning.” I’ll elaborate on that date in part two of this column.)

As Scofield’s third note shows, the gap theory was usually placed within an elaborate theological structure about the fall of Satan and the angels, based on certain prophetic texts (see below). A full discussion would take us far afield, but something should be said about how gap theorists interpret Genesis 1:2, the crucial verse for their model. Scofield sticks with the King James Version, “the earth was without form, and void,” doing the exegetical work in his notes, but others like to render it as, “the earth became a waste place,”, drawing out the implication (in their view) that God destroyed the original creation, laying waste to it in an act of judgment, leaving us with fossils of the pre-Adamic world.

In some versions of the gap view, the original creation included pre-Adamite people—that is, humans who were not descended from Adam and Eve. This idea that took many forms, some with racist overtones. Perhaps this strikes you as a bit surprising, but in the mid-nineteenth century it was a commonplace conception among Protestants, and not unknown to Catholics either. A prominent example would be The Pre-Adamite Earth: A Contribution to Theological Science (1846), a very popular book by the English Congregational minister John Harris. Historian David Livingstone has written the definitive history of this fascinating idea. For more, see this interview, but there is no substitute for reading the book itself! Let me make an invitation: who wants to borrow a copy and provide their own commentary here?

In all versions of the gap theory, however, fossils are vestiges of the pre-Adamic world, produced when it was destroyed; they are not a record of evolutionary history. All modern animals and many plants were created recently, in six literal days. Despite what YECs often say, there is just no way to see the gap theory as an “evolutionist” interpretation of Genesis!

The "Day-Age" Theory

The day-age theory takes the “days” in Genesis 1 as periods of indefinite length, such that neither the age of the earth nor the duration of any particular period in creation history can be determined from the Bible. The basis for this view is that the Hebrew word “yom” (day) can also mean an indefinite period of time. According to Hugh Ross, the leading advocate of progressive creation today, if the Hebrews had wanted to refer to a long period of indefinite length, they would have used the word “yom.” Thus, he claims to be giving a literal interpretation when he upholds the day-age view.

Numerous varieties of the day-age view have been proposed since the eighteenth century, too many to review here. They all teach that the major kinds of plants and animals were created separately, over the eons of earth history; the fossil record shows reliably which came earlier and which came later. Thus, the creation was accomplished “progressively,” as Silliman held in 1829 and Ross holds today. Ross thinks God performed millions of acts of special creation, but concordists differ substantially among themselves on the magnitude of the number for this.

Concordists mostly agree, however, that the first true humans were Adam and Eve, and that they were created ex nihilo—but, how recently were they created? Can the biblical 6,000 years be stretched far enough to encompass fossils of modern humans (homo sapiens sapiens) dating back perhaps to nearly 200,000 years? Can the biblical picture of Adam’s children living amidst cities and agriculture be reconciled with extensive evidence of humans who lived long before either existed? I’m no anthropologist, but anyone can see the relevance of such questions for this position.

(4) The Flood was a real historical event, but it was not responsible for producing the fossils; rather, fossils are relics of organisms that were mainly here before humans.

The last of the four basic assumptions shared by concordists is that they reject Flood Geology and accept the standard geologic column. Hugh Ross and some others believe that the flood was geographically localized, covering part of the ancient Near East but not the whole globe. This is called the “local flood” view. Biblical scholar Paul Seely briefly assesses this view in light of current knowledge here, but a full discussion of the issues goes well beyond of the scope of this online course. Anyone with appropriate expertise is invited to place comments below. The main point is that the flood has no geological significance for concordists, whether or not it was geographically “local.”

Looking Ahead

Our look at concordism concludes on July 3 with some conclusions about the OEC view and further historical comments. I’ll pay attention to your comments in the meantime.

It has been widely reported that the moniker “God particle” was not its originator’s first choice. Still, Leon Lederman, director emeritus of Fermilab and Nobel laureate for neutrino research, did accept the nickname “God particle” because the particle is “so central to the state of physics today, so crucial to our final understanding of the structure of matter, yet so elusive.” “God particle” was quickly accepted by the press and general public because it seemed an appropriate title for a particle theorized to give mass to all elementary matter particles and the force carrying W and Z bosons. Serving this mass-giving function since near the beginning of the universe, a Higgs field (more fundamental than the actual Higgs boson ) must necessarily exist everywhere in the universe and be unchanging. With an omnipresent and immutable field, analogies between the Higgs boson and God naturally developed within the press and the public—“God particle” became deeply rooted. Relatedly, the Higgs boson become an excellent source for theological analogies. (See for example this article.)

Nevertheless, as physicists seek to emphasize, neither the Higgs boson particle nor its field have religious properties. Thus, elementary particle physicists are not fond of the “God particle” appellation. In the opinion of Oliver Buchmueller, of CERN’s CMS group, calling the Higgs boson the “God particle is completely inappropriate. It’s not doing justice to the Higgs and what we think its role in the universe is. It has nothing to do with God“. As Pippa Wells, another CERN scientist expressed, “Calling [it] the God particle … confuses people about what we are trying to do at CERN”. (Source: Reuters)

One alternate name for the Higgs particle that is used within the physics community is the “BEH” particle. “BEH” stands for Brout–Englert–Higgs, three of the six authors of 1964 papers that first proposed a mechanism for giving mass to elementary particles. In addition to Peter Higgs, the five other authors are Robert Brout and Francois Englert, and Tom Kibble, C.R. Hagen, and Gerald Guralnik. The process for giving mass to particles is thus sometimes referred to not just as the Higgs mechanism, but as the Brout–Englert–Higgs–Hagen–Guralnik–Kibble (BEHHGK) mechanism. (Saying all six names a couple of times makes it obvious why we most often only call it the Higgs.)

But issues of naming aside, what is the Higgs and why is it so elusive? According to the Standard Model, the particles that compose matter (the quarks and leptons) are in a category called spin-1/2 particles. The force carrying particles (the photon, the W's, the Z, and the gluons) are spin-1 particles. What the physicists above proposed was the existence of a type of spinless, or spin-0 particle. Not only does the Higgs boson form its own class of particles, it also gives mass to itself and to all the other particles that have mass: to all of the leptons and quarks, and to the W's and Z bosons, but not photons or gluons. This set of relationships is shown in the image below, indicated by the lines connecting the Higgs to these other particles. There are no lines directly connecting the Higgs boson to photons and gluons because the Higgs boson does not interact with these force carrying particles and, thus, photons and gluons remain massless.

But the story of the Higgs particle actually begins with the associated Higgs field, an invisible field (something like a generalization of an electric field) that has a non-zero, constant value everywhere throughout the universe. This Higgs field continuously interacts with all matter particles and the W and Z force carrying particles. Matter and massive force particles are slowed down as they move through the Higgs field, just as are balls rolling through thick mud. The Higgs field is sometimes described as a “cosmic molasses”. Different particles interact with the Higgs field to varying degrees—those interacting more, are slowed down more, those interacting less are slowed down less. Slowing down more equates to acquiring more mass. If not for the Higgs field, all particles would be massless, zipping through the universe at the speed of light. The universe would be without structure—no galaxies, no plants, no life. Without the Higgs field, not even atoms could have formed.

It was theoretically possible for elementary particles to have mass without needing to acquire it through interaction with a Higgs-like field. However, as the standard model of elementary particles developed in the 1950’s and 1960’s, elementary particle theorists realized that if particles had their own innate mass, rather than acquiring it, many beautiful symmetries of particle interaction equations would be broken. To keep the beauty and symmetry in the theory was the essential reason the BEHHGK mechanism was developed, which immediately led to the prediction of Higgs bosons.

When there is enough external energy in a given volume, the Higgs field also produces Higgs bosons. But the Higgs bosons are very unstable and quickly decay. This is the process that enabled the discovery of the Higgs boson at CERN. At CERN, protons are accelerated to high energies via electric fields and directed in circular paths via magnetic fields. The protons then collide and release large amounts of energy. When sufficient energy is released in a collision, the Higgs field can use this energy to produce Higgs bosons. The Higgs bosons quickly decay leaving evidence of their existence through particular combinations of leftover particles that they have decayed into. Among those predicted by the mathematics of the Standard model are the muons and electrons identified by the CERN experimenters. The image at the top shows the identities and paths of particles produced in one of the CERN proton-proton collisions whose results fit with what would be expected from the decay of a Higgs boson.

For a proton-proton collision at the CERN LHC, the above diagrams show both the dominant modes for creation of a Higgs with a mass around 125 GeV, and the two dominant decay channels (modes). The creation mechanism (shown schematically in the left half of each diagram above) involves virtual gluons, the carriers of the strong nuclear force (represented by squiggly purple lines) from the protons. The gluons fuse into a virtual top quark loop (medium blue triangle), which then emits a Higgs boson (squiggly yellow line). The top quark couples more strongly to the Higgs than any of the five other quarks, so the top quark contributes the dominant loop.

The Higgs boson then dominantly decays into either (i) 2 gamma ray photons (the squiggly green lines) via another intermediate virtual top quark loop or a virtual W gauge particle loop (dark blue triangle), or (ii) two Z0 gauge particles (squiggly dark blue lines), which each then decay into a lepton (specifically an electron or a muon)/anti-lepton pair (light blue lines).

The likely discovery of the Higgs boson, and its implied existence of the associated Higgs field, is an amazing success for CERN. Past research and experience at Fermilab and by elementary particle physicists throughout the world also contributed to the discovery. The Higgs boson was the remaining particle in the Standard Model of Particle Physics to be found. With it, the Standard Model is in some sense complete. (Nevertheless, many questions about the Standard Model still remain—many inspired once again by beauty and symmetry. In particular, several numeric values associated with particle masses and interactions could only be experimentally measured, as with the Higgs, and not predicted from the Standard Model.)

With the apparent success of these experiments and seeming confirmation that the physical universe is, indeed, reflected by the complex and beautiful mathematics of the Standard Model, the international physics community is eager to keep delving deeper into the structure of creation. In addition to trying to verify that the 125 GeV particle is, indeed, the Higgs spinless particle and not some more exotic, new particle, CERN physicists are simultaneously seeking to discover an entire new class of particles, resulting from a theorized symmetry called supersymmetry. Discovery of the associated particles, if they exist, will likely take a few more years. For these discoveries we can only wait in anticipation.

Updated July 12, 2012.