Tag Archives: Amino Acid

Stephen C. Meyer lectures on intelligent design and the origin of life

A MUST-SEE lecture based on Dr. Stephen C. Meyer’s book “Signature in the Cell“. One of my favorite 6 arguments for a Creator and Designer is the origin of the simplest replicating living system. When you look into the cell, what you’ll find is carefully sequenced components that for complex structures, like proteins. In this lecture, you’ll learn all about this “biological information”.

I highly recommend watching the lecture, and looking at the slides. The quality of the video and the content is first class. There is some Q&A (9 minutes) at the end of the lecture.

Topics:

  • intelligent design is concerned with measuring the information-creating capabilities of natural forces like mutation and selection
  • Darwinists think that random mutations and natural selection can explain the origin and diversification of living systems
  • Darwinian mechanisms are capable of explaining small-scale adaptive changes within types of organisms
  • but there is skepticism, even among naturalists, that Darwinian mechanisms can explain the origin of animal designs
  • even if you concede that Darwinism can account for all of the basic animal body plans, there is still the problem of life’s origin
  • can Darwinian mechanisms explain the origin of the first life? Is there a good naturalistic hypothesis to explain it?
  • there are at least two places in the history of life where new information is needed: origin of life, and Cambrian explosion
  • overview of the structure of DNA and protein synthesis (he has helpful pictures and he uses the snap lock blocks, too)
  • the DNA molecule is composed of a sequence of bases that code for proteins, and the sequence is carefully selected to have biological function
  • meaningful sequences of things like computer code, English sentences, etc. require an adequate cause
  • it is very hard to arrive at a meaningful sequence of a non-trivial length by randomly picking symbols/letters
  • although any random sequence of letters is improbable, the vast majority of sequences are gibberish/non-compiling code
  • similarly, most random sequences of amino acids are lab-proven (Doug Axe’s work) to be non-functional gibberish
  • the research showing this was conducted at Cambridge University and published in the Journal of Molecular Biology
  • so, random mutation cannot explain the origin of the first living cell
  • however, even natural selection coupled with random mutation cannot explain the first living cell
  • there must already be replication in order for mutation and selection to work, so they can’t explain the first replicator
  • but the origin of life is the origin of the first replicator – there is no replication prior to the first replicator
  • the information in the first replicator cannot be explained by law, such as by chemical bonding affinities
  • the amino acids are attached like magnetic letters on a refrigerator
  • the magnetic force sticks the letters ON the fridge, but they don’t determine the specific sequence of the letters
  • if laws did determine the sequence of letters, then the sequences would be repetitive
  • the three materialist explanations – chance alone, chance and law, law alone – are not adequate to explain the effect
  • the best explanation is that an intelligent cause is responsible for the biological explanation in the first replicator
  • we know that intelligent causes can produce functional sequences of information, e.g. – English, Java code
  • the structure and design of DNA matches up nicely with the design patterns used by software engineers (like WK!)

There are some very good tips in this lecture so that you will be able to explain intelligent design to others in simple ways, using everyday household items and children’s toys to symbolize the amino acids, proteins, sugar phosphate backbones, etc.

Proteins are constructed from a sequence of amino acids:

A sequence of amino acids forming a protein
A sequence of amino acids forming a protein

Proteins sticking onto the double helix structure of DNA:

Some proteins sticking onto the sugar phosphate backbone
Some proteins sticking onto the sugar phosphate backbone

I highly, highly recommend this lecture. You will be delighted and you will learn something.

Here is an article that gives a general overview of how intelligent design challenges. If you want to read something more detailed about the material that he is covering in the lecture above related to the origin of life, there is a pretty good article here.

There is a good breakdown of some of the slides with helpful flow charts here on Uncommon Descent.

Positive arguments for Christian theism

What’s the best explanation for the origin of life for atheists?

I just ordered the newest edition of “The Mystery of Life’s Origin“, which is a classic book on the origin of life by pro-design authors. The new edition has several new chapters. It reminded me of my interest in the origin of life when I was a younger man, just starting full-time work with a hot Internet start-up in the big city.

Back then, I liked to listen to debates about the origin of life (e.g. – Walter Bradley versus Robert Shapiro, etc.), as well as lectures and interviews. I ordered tons of academic lectures and debates, especially from Access Research Network. Two of my favorite interviews from ARN featured Dr. Charles Thaxton and Dr. Dean Kenyon.

Let’s start with Charles Thaxton’s interview.

And here are the questions:

1. How did you first get interested in the origin of life?
2. How did you come to write The Mystery of Life’s Origin with Walter Bradley and Roger Olsen?
3. Was there an advantage to having the three of you collaborate on the project?
4. What is the primary argument of your book, The Mystery of Life’s Origin?
5. Have scientists come close to developing a plausible naturalistic explanation to the origin of life or do you still consider the origin of life to be a mystery?
6. Do you see a particular irony in the timing of Stanley Miller’s experiments and the discovery of DNA by Watson and Crick?
7. How does the emergence of modern genetics tie in with the Darwinian scenario of life going from simple to complex?
8. What are the major problems with origin of life simulation experiments?
9. Isn’t it rather impressive that amino acids were produced in the Miller experiments?
10. How close is the development of amino acids to the threshold of life?
11. What are the steps involved in producing proteins from amino acids?
12. Why are amino acids isolated during this process?
13. How can the investigator affect the outcome of a simulation experiment?
14. How did you evaluate the different chemical evolution experiments?
15. Are the initial conditions in the simulation experiments plausible?
16. What did the earth’s early atmosphere contain?
17. Will the simulation experiments work with this atmosphere?
18. There seems to be an underlying assumption that the origin of life resulted without any intelligent input whatsoever yet the simulation experiments appear to rely upon intelligent guidance. Could you comment on this irony?
19. Are there any natural processes that would have filtered out destructive ultraviolet light?
20. What additional steps beyond creating amino acids would be required to develop life?
21. What is so difficult about making proteins or nucleic acids?
22. In addition to the energy problem in protein synthesis isn’t there a sequencing problem?
23. Are DNA sequences analogous to a written language?
24. Has Hubert Yockey made similar claims?
25. In The Mystery of Life’s Origin you refer to order, randomness, and specified complexity. Could you give us an overview of these concepts?
26. What do you think the presence of specified complexity in a living system indicates about its origin?
27. In inferring the necessity of intelligence to produce life haven’t you ventured from the realm of science to religion?
28. Could you summarize the reasons why you believe intelligence was involved in the origin of life?
29. What are the major objections to your current point of view?
30. How was The Mystery of Life’s Origin received by the scientific community?
31. What was Dean Kenyon’s response to your critiques of his book, Biochemical Predestination?
32. What was Dean Kenyon’s response to The Mystery of Life’s Origin?
33. Were you a bit apprehensive about meeting Kenyon after writing a book which was quite critical of his views in Biochemical Predestination?
34. Are self-organizational theories plausible?
35. Would you comment on the work done by Prigogine and Eigen?
36. What is your assessment of RNA scenarios?
37. What other problems do you see with an RNA world?

You can learn more about Charles Thaxton here.

And here’s the interview with Dean Kenyon:

And here are the questions:

1. What first interested you in biology and the origin of life? What is your academic background in this area?
2. What was your viewpoint on the origin of life when you wrote Biochemical Predestination?
3. How have your views on the origin of life changed since you wrote Biochemical Predestination?
4. Do many of your colleagues support your new position? If not, why not?
5. What are the general presuppositions that scientists make who study the origin of life?
6. What is the Oparin-Haldane hypothesis, and what role does it play in current research and teaching on the origin of life?
7. What are the major underlying assumptions of the Oparin (chemical evolution) hypothesis?
8. Are there any other important assumptions in origin of life theories?
9. How well are these assumptions supported by currently available scientific data?
10. What is your evaluation of the Miller type of simulation experiment? What do these experiments tell us about possible chemical events on the prebiotic Earth?
11. Is it possible that interfering cross-reactions might prevent life from arising naturalistically?
12. Stanley Miller’s pioneering work in the origin of life assumed a reducing atmosphere of methane, ammonia, water vapor, and carbon dioxide? Is there sufficient empirical support for this assumption?
15. How large a gap is there between the most complex “protocell” model and the simplest living cell?
16. What is the biologically relevant information content of the simplest living organism known to exist? What are estimates for a theoretical minimum information content of the first living cell?
17. How probable is it that such complexity could arise by undirected chemical processes?
19. What are the major unsolved problems in research on the origin of life?
20. What is the relevance of the Second Law of Thermodynamics to the origin of life?
21. Is it plausible that an “RNA world” was the precursor of the first living cells?
25. If life did not originate by chemical evolution on the primitive Earth, what other possible scientific explanations exist?
26. What do you mean by your statement that “perhaps scientism is more widespread than we like to think”?
27. Is it possible that natural processes are insufficient to account for the origin of all biological information?
28. Can science rule out the possibility that most biological information had an intelligent cause?
29. What alternatives are there to pursuing purely naturalistic explanations for the origin of life?
30. What do you mean by “intelligent design” as it relates to the origin of life?
31. Why is an intelligent design or creationist interpretation of scientific data bearing on origins not acceptable to many scientists?
32. What criteria could be used to determine if the information content of living organisms had an intelligent or natural cause?
34. Does academic freedom allow you to discuss the difficulties of scientific naturalism and origin of life theories? If not, why are they protected from criticism?
35. How should the origin of life be taught in light of the California Science Framework policy which states that “nothing in science or in any other field of knowledge shall be taught dogmatically”?
36. How is scientific progress impacted when critiques of current theories are suppressed?

You can learn more about Dean Kenyon here.

The challenge for naturalists posed by the origin of life makes it well worth your time to learn and understand. I used to explain this argument to my entire IT department on white boards when I was a young man. It’s fascinating, and more convincing than personal testimonies or abstract philosophical arguments. Although I read books on the origin of life, I learned how to present the information as an argument by watching the interviews above over and over.

People sometimes ask me how I was able to survive 22 years in IT with my theism intact. It turns out that there are no shortcuts to a theistic worldview. You have to support it with evidence. You have to be able to show your work about how you reached your conclusions. I’m a theist today because I never found a single atheist in any software development job who could even begin to challenge the evidence that I collected from listening to all those lectures and debates that I started from in my early 20s. It was as easy to defeat them as taking candy from a baby.

If only Christian parents and Christian leaders understood the importance of scientific facts when they talk to young people about Christianity. We need to be less worried about hurting the feelings of young people by making them “feel dumb”. Christianity isn’t supposed to be easy. It’s not a bad thing to ask people to work hard at learning how to rationally ground it with evidence. If we want to stop our young people from being lazy, ignorant and cowardly, then the right way to do it is to make them work. Make them learn. Make them fight.

Does the Miller-Urey experiment tell us anything about how life originated on Earth?

Do the Miller-Urey experiments simulate the early Earth?
The Miller-Urey experiments

There are two problems related to the origin of the first living cell, on atheism:

  1. The problem of getting the building blocks needed to create life – i.e. the amino acids
  2. The problem of creating the functional sequences of amino acids and proteins that can support the minimal operations of a simple living cell

Normally, I concede the first problem and grant the atheist all the building blocks he needs. This is because step 2 is impossible. There is no way, on atheism, to form the sequences of amino acids that will fold up into proteins, and then to form the sequences of proteins that can be used to form everything else in the cell, including the DNA itself.

Today, let’s take a look at the problems with step 1.

The problem of getting the building blocks of life

Now you may have heard that some scientists managed to spark some gasses to generate most of the 20 amino acids found in living systems. These experiments are called the “Miller-Urey” experiments.

The IDEA center has a nice summary of origin-of-life research that explains a few of the main problems with step 1.

Miler and Urey used the wrong gasses:

Miller’s experiment requires a reducing methane and ammonia atmosphere,11, 12 however geochemical evidence says the atmosphere was hydrogen, water, and carbon dioxide (non-reducing).15, 16 The only amino acid produced in a such an atmosphere is glycine (and only when the hydrogen content is unreasonably high), and could not form the necessary building blocks of life.11

Miller and Urey didn’t account for UV of molecular instability:

Not only would UV radiation destroy any molecules that were made, but their own short lifespans would also greatly limit their numbers. For example, at 100ºC (boiling point of water), the half lives of the nucleic acids Adenine and Guanine are 1 year, uracil is 12 years, and cytozine is 19 days20 (nucleic acids and other important proteins such as chlorophyll and hemoglobin have never been synthesized in origin-of-life type experiments19).

Miller and Urey didn’t account for molecular oxygen:

We all have know ozone in the upper atmosphere protects life from harmful UV radiation. However, ozone is composed of oxygen which is the very gas that Stanley Miller-type experiments avoided, for it prevents the synthesis of organic molecules like the ones obtained from the experiments! Pre-biotic synthesis is in a “damned if you do, damned if you don’t” scenario. The chemistry does not work if there is oxygen because the atmosphere would be non-reducing, but if there is no UV-light-blocking oxygen (i.e. ozone – O3) in the atmosphere, the amino acids would be quickly destroyed by extremely high amounts of UV light (which would have been 100 times stronger than today on the early earth).20, 21, 22 This radiation could destroy methane within a few tens of years,23 and atmospheric ammonia within 30,000 years.15

And there were three other problems too:

At best the processes would likely create a dilute “thin soup,”24 destroyed by meteorite impacts every 10 million years.20, 25 This severely limits the time available to create pre-biotic chemicals and allow for the OOL.

Chemically speaking, life uses only “left-handed” (“L”) amino acids and “right-handed” (“R)” genetic molecules. This is called “chirality,” and any account of the origin of life must somehow explain the origin of chirality. Nearly all chemical reactions produce “racemic” mixtures–mixtures with products that are 50% L and 50% R.

Two more problems are not mentioned in the article. A non-peptide bond anywhere in the chain will ruin the chain. You need around 200 amino acids to make a protein. If any of the bonds is not a peptide bond, the chain will not work in a living system. Additionally, the article does not mention the need for the experimenter to intervene in order to prevent interfering cross-reactions that would prevent the amino acids from forming.

Now keep in mind that even if you get the building blocks, you are left with the sequencing problem. Like the letters of the words in this blog post, the building blocks of life also need to be put in a meaningful sequence in order to do work in a living system – but that’s another topic for another day.