Tag Archives: Carbon

Polemics

Can naturalism account for the origin of the 20 amino acids in living systems?

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

The origin of life

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

  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 naturalist all the building blocks he needs. This is because step 2 is impossible. There is no way, on naturalism, 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. But that’s a topic for a separate post.

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.

Usually when you hear the origin of life debated, they sort of skirt about the problem of where the amino acids come from, but there is no reason not to make that an issue. The naturalist has to explain how the first living cell could come about naturalistically.

Positive arguments for Christian theism

 

Polemics

Is silicon-based life a possible alternative for carbon-based life?

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In a recent debate, atheist philosopher Alex Rosenberg responded to the cosmic fine-tuning argument presented by William Lane Craig by asserting that complex life could be other than it is. He specifically mentioned silicon-based life.

Let’s see what scientists think of his speculation, using this article from Scientific American.

Excerpt:

Group IV of the Periodic Table of the Elements contains carbon (C), silicon (Si) and several heavy metals. Carbon, of course, is the building block of life as we know it. So is it possible that a planet exists in some other solar system where silicon substitutes for carbon? Several science fiction stories feature silicon-based life-forms–sentient crystals, gruesome golden grains of sand and even a creature whose spoor or scat was bricks of silica left behind. The novellas are good reading, but there are a few problems with the chemistry.

Indeed, carbon and silicon share many characteristics. Each has a so-called valence of four–meaning that individual atoms make four bonds with other elements in forming chemical compounds. Each element bonds to oxygen. Each forms long chains, called polymers, in which it alternates with oxygen. In the simplest case, carbon yields a polymer called poly-acetal, a plastic used in synthetic fibers and equipment. Silicon yields polymeric silicones, which we use to waterproof cloth or lubricate metal and plastic parts.

But when carbon oxidizes–or unites with oxygen say, during burning–it becomes the gas carbon dioxide; silicon oxidizes to the solid silicon dioxide, called silica. The fact that silicon oxidizes to a solid is one basic reason as to why it cannot support life. Silica, or sand is a solid because silicon likes oxygen all too well, and the silicon dioxide forms a lattice in which one silicon atom is surrounded by four oxygen atoms. Silicate compounds that have SiO4-4 units also exist in such minerals as feldspars, micas, zeolites or talcs. And these solid systems pose disposal problems for a living system.

So, first of all, it makes SAND. Second of all, it is so attracted to oxygen that it can’t easily join to make any other polymers that could be used in the chemistry of the minimal functions of a living system.

More:

Also consider that a life-form needs some way to collect, store and utilize energy. The energy must come from the environment. Once absorbed or ingested, the energy must be released exactly where and when it is needed. Otherwise, all of the energy might liberate its heat at once, incinerating the life-form. In a carbon-based world, the basic storage element is a carbohydrate having the formula Cx(HOH)y. This carbohydrate oxidizes to water and carbon dioxide, which are then exchanged with the air; the carbons are connected by single bonds into a chain, a process called catenation. A carbon-based life-form “burns” this fuel in controlled steps using speed regulators called enzymes.

These large, complicated molecules do their job with great precision only because they have a property called “handedness.” When any one enzyme “mates” with compounds it is helping to react, the two molecular shapes fit together like a lock and key, or a shake of hands. In fact, many carbon-based molecules take advantage of right and left-hand forms. For instance, nature chose the same stable six-carbon carbohydrate to store energy both in our livers (in the form of the polymer called glycogen) and in trees (in the form of the polymer cellulose).

Glycogen and cellulose differ mainly in the handedness of a single carbon atom, which forms when the carbohydrate polymerizes, or forms a chain. Cellulose has the most stable form of the two possibilities; glycogen is the next most stable. Because humans don’t have enzymes to break cellulose down into its basic carbohydrate, we cannot utilize it as food. But many lower life-forms, such as bacteria, can.

In short, handedness is the characteristic that provides a variety of biomolecules with their ability to recognize and regulate sundry biological processes. And silicon doesn’t form many compounds having handedness. Thus, it would be difficult for a silicon-based life-form to achieve all of the wonderful regulating and recognition functions that carbon-based enzymes perform for us.

The troubling thing I find about atheists is that they seem to be under the impression that an alternative speculative explanation is a refutation of an argument that is based in evidence.

So it goes like this:

  • origin of the universe? I can speculate about a naturalistic alternative cosmology which is falsified by observations
  • cosmic fine-tuning? I can speculate about an untestable multiverse
  • origin of life? I can speculate about unobservable aliens who seeded the Earth with life
  • Cambrian explosion? I can speculate about intermediary fossils that have not yet been discovered
  • habitability? I can speculate that habitable planets exist just outside the boundary of the observable universe
  • resurrection of Jesus? I can speculate that Jesus had an unknown, identical twin brother who showed up when he died and took his place

I think that if we are going to make a worldview, we should ground it in the evidence we have today. We should not have faith in speculative theories that we heard about on Star Trek. Seriously.

Polemics

What makes a planet suitable for supporting complex life?

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The Circumstellar Habitable Zone (CHZ)

What do you need in order to have a planet that supports complex life? First, you need liquid water at the surface of the planet. But there is only a narrow range of temperatures that can support liquid water. It turns out that the size of the star that your planet orbits around has a lot to do with whether you get liquid water or not. A heavy, metal-rich star allows you to have a habitable planet far enough from the star so  the planet can support liquid water on the planet’s surface while still being able to spin on its axis. The zone where a planet can have liquid water at the surface is called the circumstellar habitable zone (CHZ). A metal-rich star like our Sun is very massive, which moves the habitable zone out further away from the star. If our star were smaller, we would have to orbit much closer to the star in order to have liquid water at the surface. Unfortunately, if you go too close to the star, then your planet becomes tidally locked, like the moon is tidally locked to Earth. Tidally locked planets are inhospitable to life.

Circumstellar Habitable Zone
Circumstellar Habitable Zone

Here, watch a clip from The Privileged Planet: (Clip 4 of 12, full playlist here)

But there’s more.

The Galactic Habitable Zone (GHZ)

So, where do you get the heavy elements you need for your heavy metal-rich star?

You have to get the heavy elements for your star from supernova explosions – explosions that occur when certain types of stars die. That’s where heavy elements come from. But you can’t be TOO CLOSE to the dying stars, because you will get hit by nasty radiation and explosions. So to get the heavy elements from the dying stars, your solar system needs to be in the galactic habitable zone (GHZ) – the zone where you can pickup the heavy elements you need but not get hit by radiation and explosions. The GHZ lies between the spiral arms of a spiral galaxy. Not only do you have to be in between the arms of the spiral galaxy, but you also cannot be too close to the center of the galaxy. The center of the galaxy is too dense and you will get hit with massive radiation that will break down your life chemistry. But you also can’t be too far from the center, because you won’t get enough heavy elements because there are fewer dying stars the further out you go. You need to be in between the spiral arms, a medium distance from the center of the galaxy.

Like this:

Galactic Habitable Zone
Galactic Habitable Zone and Solar Habitable Zone

Here, watch a clip from The Privileged Planet: (Clip 10 of 12, full playlist here)

The GHZ is based on a discovery made by astronomer Guillermo Gonzalez, which made the front cover of Scientific American in 2001. That’s right, the cover of Scientific American. I actually stole the image above of the GHZ and CHZ (aka solar habitable zone) from his Scientific American article (linked above).

These are just a few of the things you need in order to get a planet that supports life.

Here are a few of the more well-known ones:

  • a solar system with a single massive Sun than can serve as a long-lived, stable source of energy
  • a terrestrial planet (non-gaseous)
  • the planet must be the right distance from the sun in order to preserve liquid water at the surface – if it’s too close, the water is burnt off in a runaway greenhouse effect, if it’s too far, the water is permanently frozen in a runaway glaciation
  • the solar system must be placed at the right place in the galaxy – not too near dangerous radiation, but close enough to other stars to be able to absorb heavy elements after neighboring stars die
  • a moon of sufficient mass to stabilize the tilt of the planet’s rotation
  • plate tectonics
  • an oxygen-rich atmosphere
  • a sweeper planet to deflect comets, etc.
  • planetary neighbors must have non-eccentric orbits

By the way, you can watch a lecture with Guillermo Gonzalez explaining his ideas further. This lecture was delivered at UC Davis in 2007. That link has a link to the playlist of the lecture, a bio of the speaker, and a summary of all the topics he discussed in the lecture. An excellent place to learn the requirements for a suitable habitat for life.