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Remember That Nuclear Disaster in Japan?

On March 11 of 2011, the most powerful earthquake known to have hit Japan struck near the east coast of Honshu. The earthquake generated a tsunami that reached a height of more than 130 feet. Just last month, the Japanese National Police agency reported that there were at least 15,870 people who died, an additional 6,114 who were injured, and 2,814 who are still missing as a result.¹ Obviously, it was a disaster of truly stunning proportions.

One of the many things that happened as a consequence of the disaster is that some of the reactors at the Fukushima Daiichi Nuclear Power Plant went into meltdown, and radioactive substances were leaked into the ocean and released into the air. People in a 12-mile radius around the power plant were evacuated so that they would not be exposed to too much radiation. As a result of the meltdown, there is increasing political pressure for Japan to end its reliance on nuclear power. According to the Christian Science Monitor, Prime Minister Yoshihiko’s party has recommended that Japan phase out all nuclear power by the year 2030.

Back when the nuclear disaster was in the news, I commented on it (here and here). Since then, I have been following the scientific literature to see what those who have been monitoring the situation are saying regarding its long-term effects. Recently, a study and some commentary on the study were published in the journal Energy & Environmental Science, and they are surprising, to say the least.

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Bugs and Bacteria Working Together

Mutualistic symbiosis, the process by which organisms of different species interact so that all of them benefit, is a very common phenomenon in creation (see here, here, here, here, and here for a few examples). A recent study in the Proceedings of the National Academy of Sciences, USA highlights a very interesting case of mutualistic symbiosis that not only has some important implications for farmers, but also relates to the creation/evolution controversy.

The study examined insecticide resistance in bean bugs (Riptortus pedestris) and similar insects. The authors considered one of the most popular insecticides used by farmers across the world, fenitrothion. It has been known for some time that certain insects, such as the bean bugs in the study, can develop resistance to that insecticide. This is a problem, since bean bugs not only damage bean crops, but also some fruit crops.¹ The authors were interested in what causes this insecticide resistance. As they state in the introduction to their paper:

Mechanisms underlying the insecticide resistance may involve alteration of drug target sites, up-regulation of degrading enzymes, and enhancement of drug excretion, which are generally attributable to mutational changes in the pest insect genomes.

In other words, when an insect develops resistance to an insecticide, it is generally assumed that there was a change in the DNA of the insect. A mutation might have damaged the site where the insecticide is supposed to bind; the activity of a gene involved in the destruction of unwanted chemicals might have been enhanced so that the insect destroys the insecticide; or perhaps the activity of a gene involved in getting rid of waste is enhanced so that the insect just excretes the insecticide.

The authors show that for the specific case of fenitrothion resistance in bean bugs and similar insects, none of these mechanisms play a role.

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An Excellent Quote

Not long ago, Dr. Jerry Alan Fodor (a professor of Philosophy) and Dr. Massimo Piattelli-Palmarini (a professor of cognitive science) wrote a book entitled What Darwin Got Wrong. I haven’t read the book, but what I have read about it indicates that the authors strongly believe Darwin was right when it comes to the idea that all species descended from a common ancestor. However, they strongly disagree with the mechanism that Darwin proposed (and most Neo-Darwinists accept) for the process by which that happened. While most modern evolutionists contend that mutation acted on by natural selection is the main process by which species adapt and change, the authors argue that it is only one of many considerations. In fact, they go a step further and claim that there is no scientific reason to elevate natural selection above these other processes which it comes to their relative importance.

Since I have not read the book, I cannot comment on the validity of their arguments. However, I ran across a quote from the introduction that makes me want to read the entire book. They call their introduction “Terms of Engagement.” After laying out the terms and outlining the contents of the book, the authors write:

So much for a prospectus. We close these prefatory comments with a brief homily: we’ve been told by more than one of our colleagues that, even if Darwin was substantially wrong to claim that natural selection is the mechanism of evolution, nonetheless we shouldn’t say so. Not, anyhow, in public. To do that is, however inadvertently, to align oneself with the Forces of Darkness, whose goal it is to bring Science into disrepute. Well, we don’t agree. We think the way to discomfort the Forces of Darkness is to follow the arguments wherever they may lead, spreading such light as one can in the course of doing so. What makes the Forces of Darkness dark is that they aren’t willing to do that. What makes science scientific is that it is.

[Jerry Fodor and Massimo Piattelli-Palmarini, What Darwin Got Wrong, Farrar, Straus, and Giroux, First American Edition 2010, p. xx]

I couldn’t agree more. When those who call themselves scientists want to shut off debate on an issue, they are exposing themselves for what they are: rabidly anti-science. Science is all about following the evidence, regardless of where that evidence might lead. It is unfortunate that some (if not many) in the scientific community attempt to silence those who are simply trying to follow the evidence.

Direct Evidence that a Father’s Age Affects Autism Risk

A magnified image of stained human sperm (click for credit)

While there is some disagreement on the subject, most medical scientists would agree that Autism rates are on the rise in the U.S. and in many other parts of the world. What’s the reason for this increase? Like most medical issues, there are probably a variety of reasons. Some have suggested that the increase in autism can be linked to childhood vaccination, but the data argue strongly against it. Most likely, there are a series of genetic and environmental factors that play a role in the increase.

For quite some time now, there has been strong evidence that the age of the father has a significant effect on the chance of his child having autism.¹ There has been evidence that the mother’s age also plays a role, but its effect is much smaller.² However, these studies simply demonstrate a correlation between parental age and autism. They do not show that increased parental age plays a direct role in the cause of autism. However, a recent study published in the journal Nature has changed that. It seems to provide a direct link between the age of the father and autism in the child.

The authors of the study examined the entire genomes of 78 parent-offspring trios (mother, father, and child) to directly determine what mutations the child received from the father’s sperm cell and what mutations the child received from the mother’s egg cell. Because they were specifically interested in the cause of neurological disorders, they used a large number of trios that contained a child with either autism or schizophrenia. In the end, 44 of the children had autism spectrum disorder, and 21 were schizophrenic. In addition, the genomes of 1,859 other people were sequenced to serve as a population comparison.

The authors focused on the de novo mutations in the children. These are mutations that do not exist in either parent but do exist in the child. Thus, they must arise from a mutation that occurred when the father made his sperm or the mother made her egg. Such mutations happen in every production of egg and sperm cells, and the authors wanted to know which parent (if either) was more responsible for them. The results were surprising, to say the least!

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Homeschool Graduates and Community College

mcc — Monroe Community College in Rochester, NY (click for credit)

I try to keep up on all the latest research related to homeschooled students. Unfortunately, I seem to have missed a small study that was published in the summer 2008 edition of the Journal of College Admission. The study wasn’t done on homeschooled students; instead, it was done on community college admissions officers. The authors sent surveys to them, asking about their perceptions of homeschool graduates. I found several of the paper’s points rather interesting and worthy of some discussion.¹

First, the paper reports on the results of another study I somehow missed. The study is a bit old (1998), but the results are worth noting. It examined the community college transcripts of 101 homeschool graduates and compared them to those of students who graduated from a traditional high school. The study found that both full-time and part-time homeschool graduates had significantly higher grade point averages (GPAs) than their peers. In addition, the study examined the results of the Texas Academic Skills Program, a test that all students who attend state-funded, post-secondary educational institutions in Texas are required to take. The test covers reading, writing, and mathematics. Once again, the homeschool graduates achieved significantly higher scores than their traditionally-schooled peers.²

Second, the paper discusses the admissions process for homeschool graduates at community colleges. It notes that only 50% of those that responded to the survey have an official policy regarding the admissions process for homeschool graduates. That surprised me. After all, you would think that community colleges would cater to nontraditional students, and homeschooled students are clearly nontraditional. Also, many homeschooling families are looking for ways to make college more affordable, since they generally have a number of children. As a result, you would think that community colleges would be a natural choice for many homeschool graduates. It seems to me, then, that it would be natural for the vast majority of community colleges to have an official policy regarding how homeschool graduates should be admitted.

Now while only 50% of the responding colleges had an official policy for the admission of homeschool graduates, 80% said that they had procedures in place that would allow for the admission of such students. Thus, even without an official policy, some community colleges still make it possible for homeschool graduates to be admitted. That’s good news, of course, but it makes me wonder why a school that allows for the admission of homeschool graduates doesn’t have an official policy regarding how that should be done!

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An Atheist Who Rejects Materialist Neo-Darwinism

Dr. Thomas Nagel is a Professor of Philosophy and Law at New York University. He has a long list of academic publications, which include books and journal articles. He is a Fellow of the American Academy of Arts and Sciences as well as the British Academy. He has been awarded both the Rolf Schock Prize for his work in philosophy and the Balzan Prize for his work in moral philosophy. Oh…and he is an atheist. He recently wrote a fascinating book entitled, Mind and Cosmos:Why the Materialist Neo-Darwinian Conception of Nature is Almost Certainly False.

The book is fascinating on many levels. Probably the most obvious is the fact that while he is an atheist, he speaks very highly of the Intelligent Design movement. In fact, he credits the Intelligent Design movement for stimulating his thinking on the subject of origins. He disagrees with their belief in a Designer, but he has given them a fair hearing, and he says this:

Even if one is not drawn to the alternative of an explanation by the actions of a designer, the problems that these iconoclasts pose for the orthodox scientific consensus should be taken seriously. They do not deserve the scorn with which they are commonly met. It is manifestly unfair. (p.10)

But wait a minute. Aren’t the Intelligent Design arguments fatally flawed? Don’t they rest on an incredibly poor understanding of the nature of science? Not according to this philosopher. He has read both the Intelligent Design advocates and their critics, and he says:

Those who have seriously criticized these arguments have certainly shown there are ways to resist the design conclusion; but the general force of the negative part of the intelligent design position – skepticism about the likelihood of the orthodox reductive view, given the available evidence – does not appear to me to have been destroyed in these exchanges. (p. 11)

But wait a minute, isn’t the only motivation behind Intelligent Design the desire to “prove” the existence of God? Nagel says that’s certainly part of the motivation, but not all of it. After all, he mentions David Berlinski as someone who is sympathetic to the negative claims of the Intelligent Design movement but has no desire to believe in a Designer. He also says:

Nevertheless, I believe the defenders of intelligent design deserve our gratitude for challenging a scientific world view that owes some of the passion displayed by its adherents precisely to the fact that it is thought to liberate us from religion. (p. 12)

In the end, then, religious motivations exist on both sides. Some Intelligent Design advocates are motivated by their desire to lend evidence to their belief in a Designer, but some evolutionists are motivated by their desire to be liberated from religion. This even-handed observation is obviously true, but it is rarely made by those who do not believe in God.

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The Stories Behind A Few Hymns

spafford — Horatio Spafford, author of "It is Well with My Soul." (Click for credit)

While one of my favorite things to write about is science, I do touch on other topics from time to time. For example, I have written several Christian dramas. I posted two of them on this blog (here and here), and I hope to post more as time goes on. This is my latest addition. It’s called “Sing Those Old Hymns with Feeling,” and it presents the inspiring stories related to some of the classic hymns of the Christian faith. As these hymns get older and older, it gets harder and harder for many Christians to be inspired by them. In my opinion, that’s unfortunate. I find many modern Christian songs to be inspiring, and I enjoy singing them in church. However, I find many old hymns to be inspiring as well, and I also enjoy singing them in church. It was my hope that by presenting some of the stories related to the hymns, people in my church would find them more inspiring.

I started the play with one of my favorite devices: making the congregation a little uneasy. The worship leader got up and dropped her music so it spilled all over the floor. She muttered under her breath as she knelt down and gathered up the mess of music. Then, in a very unenthusiastic way, she asked the congregation to join her in singing “What a Friend We Have in Jesus.” The pianist started playing, but the melody was “I’m a Little Teapot.” The worship leader stopped the pianist and very impatiently told her that we were singing “What a Friend We Have in Jesus.” The pianist began to play, but she played it way too slowly. The song was allowed to go on for a few bars, and then someone from the congregation jumped up and started yelling for it to stop. He then went up front to tell the worship leader that this hymn is very important and should be sung with feeling. That’s when the meat of the play began.

Through the course of the play, the congregation learned the stories behind seven of the great hymns of the faith: “What a Friend We Have in Jesus,” “It Is Well with My Soul,” “His Eye Is on the Sparrow,” “All Hail the Power of Jesus’ Name,” “When the Roll is Called up Yonder,” “All the Way My Savior Leads Me, and “Revive Us Again.” All of the stories are inspiring in their own way, but my favorite is the one behind “It Is Well with My Soul.” I have written previously about how Christians should deal with tragedy, and I think the author of that hymn, Horatio Spafford, is a perfect model for how it should be done.

Even though this script has nine characters, we used only six people for the performance. All three female hymn writers were played by one woman, with small changes to her costume for each character. Two of the male hymn writers were played by the same person, but in fact, all four of them could be played by a single man, if he is good at memorizing lines! Please feel free to use this play in any way that you like, but I would appreciate a credit if you use it (or a part of it) in any public presentation. Even if you don’t do dramas in your church, you might want to read the stories. As I said, they are very inspiring! The script is given in the following PDF file:

Sing Those Old Hymns With Feeling

The Great Debate

Last night, I debated Dr. Robert A. Martin on the question of creation versus evolution. I obviously took the creation side, and he took the evolution side. I debated him once before in 2009, and you can watch a video of that debate here. The format of this debate was a bit different from the one on the video. In this one, we each had 30 minutes to present our case, and then the audience asked us questions. The purpose of the questions was to focus the debate on what the audience found interesting in our presentations. Dr. Martin and I were each given a chance to address the question, and that usually led to more interaction between us. Everyone with whom I talked, including Dr. Martin, was very pleased with how it all turned out.

One thing I have to say up front is how appreciative I am of Dr. Martin. First, the fact that he was willing to do the debate at all is a testament to his commitment to real science education. I contacted several universities in Indiana, and none of them were interested in finding an evolutionist professor who was willing to debate. The common response by evolutionists is that they don’t debate creationists, because that would give the creationist view too much legitimacy. However, Dr. Martin realized that if no one came to give the evolutionary side, everyone at the conference would hear only one side of the story, and that’s not very good when it comes to science education. As a result, he was willing to drive from Kentucky to make sure that both sides were heard.

Second, Dr. Martin was incredibly gracious. He knew going in that this was a creationist event, so he knew that his view would be in the minority. In some ways, he was like a lion in a den of Daniels. However, he was very kind in how he treated everyone. Now don’t get me wrong – he took a strong stand for evolution. He often said things like the evidence for evolution is overwhelming, and that there is just no question about the age of the earth and the universe. But never once did he descend into the name-calling and other nonsense that is common among those who don’t care to discuss evidence. He limited his discussion to the science, and that was great.

Third, Dr. Martin was kind enough to stay longer than we had intended. Not surprisingly, there were a lot of questions, and at the scheduled end of the debate, the moderator stopped and said that we were officially out of time. However, Dr. Marin immediately said that he was willing to stay longer. As a result, everyone who stood up to ask a question was able to interact with us. Even after the debate was over, he stayed and talked with people one-on-one for quite some time. Clearly, Dr. Martin has a passion for science and science education. His demeanor and willingness to pleasantly engage people with whom he disagrees demonstrated that to me in no uncertain terms.

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The ENCODE Data and Pseudogenes

As I mentioned in two previous posts (here and here), the coordinated release of scientific papers from the ENCODE project has produced an enormous amount of amazing data when it comes to the human genome and how cells in the body use the information stored there. While the majority of commentary regarding these data has focused on the fact that human cells use more than 80% of the DNA found in them, I think some of the most interesting scientific results have gotten very little attention. They are contained in a paper that was published in a journal named Genome Biology, and they relate to the pseudogenes found in human DNA.

For those who are not aware, a pseudogene is a DNA sequence that looks a lot like a gene, but because of some details in the sequence, it cannot be used to make a protein. Remember, a gene’s job is to provide a “recipe” for the cell so that it can make a protein. Well, a pseudogene looks a lot like a recipe for a protein, but it cannot be used that way. Think of your favorite recipe in a cookbook. If you use it a lot, it probably has stains on it because it has been open while you are cooking. Imagine what would happen if the recipe got so stained that certain important instructions were rendered unreadable. For someone who has never looked at the recipe before, he might recognize that it is a recipe, but because certain important instructions are unreadable, he will never be able to use the recipe to make the dish. That’s what a pseudogene is like. It looks like a recipe for a protein, but certain important parts have been damaged so that they cannot be used properly anymore. As a result, the recipe cannot be used by the cell to make a protein.

Pseudogenes have been promoted by evolutionists as completely functionless and as evidence against the idea that the human genome is the result of design. Here is how Dr. Kenneth R. Miller put it back in 1994:¹

From a design point of view, pseudogenes are indeed mistakes. So why are they there? Intelligent design cannot explain the presence of a nonfunctional pseudogene, unless it is willing to allow that the designer made serious errors, wasting millions of bases of DNA on a blueprint full of junk and scribbles. Evolution, however, can explain them easily. Pseudogenes are nothing more than chance experiments in gene duplication that have failed, and they persist in the genome as evolutionary remnants…

Obviously, Dr. Miller didn’t understand intelligent design or creationism when he wrote that, as they can both explain nonfunctional pseudogenes. Before I discuss that, however, I need to point out that since 1994, functions have been found for certain pseudogenes. As far as I can tell, the first definitive evidence for function in a pseudogene came in 2003, when Shinji Hirotsune and colleagues found that a specific pseudogene was involved in regulating the functional gene that it resembles.² Since then, functions for several other pseudogenes have been found. In fact, a recent paper in RNA Biology suggests that the use of pseudogenes as regulatory agents is “widespread.”³

Even though functions have been found for many pseudogenes, the question remains: Are most pseudogenes functional, or are most of them non-functional? Well, based on the ENCODE results, we might have the answer. While the ENCODE results indicate that the vast majority of the genome is functional, they also indicate that the vast majority of pseudogenes are, in fact, non-functional.

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