I am a Christian. I believe in the God of the Bible, in God the Father, in His Son Jesus Christ, and in the Holy Spirit. I believe in Genesis 1:1 - "In the beginning God created the heavens and the earth. (NIV)" I am a biochemist and a pharmacist by education. As such I have a desire to understand nature. I am writing this blog as my way to express the facts of true science as I understand them, from the perspective of one who believes that all things were created by God, for God and for His purposes.

Feel free to comment, to offer your perspective, or to give suggestions for subjects.
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Tuesday, January 10, 2017

Searching Inward Part One - The Life Around Us

So we have shown that the Earth is very possibly the only planet in the Universe that can support life as we know it. Now we move on to the next part of our series:

Searching Inward - Psalm 139:13 (NIV) "For you created my inmost being; you knit me together in my mother's womb." - Finding God in the formation of life and the human body.

We will start our search first with a look at what we consider as life and how secular science views the process of evolution, from the beginning of life to the great diversity we see around us. I believe, as a Christian, that God created all life but that does not preclude Him using that which He designed, i.e. genetics, to bring about parts of His Creation. Much like how we showed that God nurtured (The Hebrew word "râchaph") the Universe and the Earth to make it ready for life, He certainly could do the same to fine-tune the life He created.

So, what is life anyway? Within science there is no one clear definition of life that is accepted by all but most consider life to contain these characteristics:

Living things are organisms that display the ability to grow, reproduce, take in and use energy, excrete waste, respond to the environment, and possess an organized structure more complex than that of non-living things.

At the border of living versus non-living things are viruses and single celled bacteria. Viruses are not really "alive" based on our definition but are more like a computer that runs a machine that makes more computers. On their own, they can not grow, reproduce, or take in and use energy, these functions are carried out by the host cell they infect. Viruses have been described as "organisms at the edge of life." They consist of genetic material made from either DNA or RNA, a protein coat, called the capsid, which surrounds and protects the genetic material and, in some cases, an envelope of lipids that surrounds the protein coat.

Viruses are extremely complex biological particles. So even if on the edge of life, they seem much too complex to happen by chance. Science considers the evolutionary history of viruses to be unclear, possibly coming from bacteria or plasmids, small DNA fragments that can move between cells. They are considered an important means of horizontal gene transfer, infecting and potentially modifying DNA in the host cell, which can increase genetic diversity.

CelltypesBacteria are prokaryotic microorganisms, being single celled and not containing a membrane-bound nucleus, the simplest form of life. They were among the first life forms to appear on Earth, and are present in most of its habitats. Here again, these organisms are extremely complex, more so than viruses, and seem highly unlikely to form by the random chance interactions of molecules, many of which themselves are complex and had to form randomly. As mutations did not occur at this stage in the proposed evolutionary process, bacteria are assumed to have been randomly formed from protocells, a self-organized, endogenously ordered, spherical collection of lipids. Science has yet to demonstrate how a protocell could be formed.

So the scientific expectation is that simple molecules formed from the elements under the harsh conditions of the early Earth via chemical reactions. These molecules then continued to become more complex until such a time as they formed amino acids (proteins), nucleic acids (DNA and RNA) and lipids (fats). These molecules can be formed by chemical reactions under specific conditions, but did these conditions exist on the early Earth and if so, would these reactions occur with sufficient frequency and consistency to produce these protocells? Again this seems unlikely.

Would these protocells, if they formed, then spontaneously combine in such a way to make a living cell? At what point does this non-living mass of molecules become able to function independently and to reproduce itself? The odds of this happening seem even greater than the odds that Earth would be capable of supporting life. The second law of thermodynamics requires that the universe move in a direction in which disorder (or entropy) increases, yet life is distinguished by its high degree of organization.

If we look past this dilemma and assume that prokaryotes formed, then we need to next move to the eukaryotes. Eukaryotes are organisms with a more complex cellular structure and many cells. Most plants and animals are eukaryotes. Now here science utilizes mutations to make this leap so lets look at the definitions.

Mutation: Random alterations to the DNA sequences that make up genes and which are passed from one generation to the next. Mutations are key to the evolutionary process, being the major source of microevolutionary changes.

Microevolution: Changes in the gene pool (primarily mutations) of a population over time which result in relatively small changes to the organisms in the population. Changes which would not result in the newer organisms being considered as different species. Examples of such microevolutionary changes would include a change in a species' coloring, size or bodily processes.

Macroevolution: Changes in organisms which are significant enough that, over time, the newer organisms would be considered an entirely new species. In other words, the new organisms would be unable to mate with their ancestors or reproduce as the older organism, assuming we were able to bring them together. Macroevolution is thought to happen when sufficient microevolutionary changes occur, resulting in a new species.

Natural Selection: The process by which traits that are favorable in a given environment become more common in subsequent generations, and traits that are less favorable become less common. This is considered a significant source of microevolutionary changes that can lead to macroeveolution. It is one process that works against mutational randomness by preferential selection of the "better" genetic change. An example in bacteria would be the development of resistance to antibiotics.

As we look at these processes and how they might occur and lead to more diverse genetics and the growth of the evolutionary tree, there seems to be some difficulties. One primary difficulty is the amount of time needed for evolutionary changes to occur and what the fossil record shows for the appearance of advanced life. Is there enough time from the formation of the earth until now to allow for all the diversity we see?


Was there enough Time for Evolution?
Or did God "Nurture" it along?
As He did with the formation of the Universe.

Earth formed 4.5 billion years ago and life started 3.8 billion years ago. But up until the Cambrian Explosion, which started about 452 million years ago, most life was prokaryotic (single celled) or organized into colonies. The Cambrian explosion was a period in the fossil record lasting anywhere from 2 to 50 million years, where there was the sudden appearance and diversification of almost every major group (phylum) of animal life (multicellular, eukaryotic organisms). Plants started to develop at about the same time but the rate of changes in diversity was slower than that observed for animals. Was this enough time for the massive changes in structure to occur from prokaryotes to advanced eukaryotes?

Some challenges that the Cambrian Explosion brings to evolution are (from Reasons to Believe):

  1. While evolutionary scenarios, as opposed to worked-out theories, exist for hypothesizing how new genera, new orders, and new families of animal life might appear, there is no rational evolutionary scenario for explaining how a new animal phylum might appear.
  2. From 50 to 80 percent of the animal phyla known to have existed at any time in Earth’s history appeared within no more than a few million years of one another, as the Cambrian geological era began.
  3. Of the 182 animal skeletal designs theoretically permitted by the laws of physics, 146 appear in the Cambrian explosion fossils.
  4. The Cambrian explosion marks the first appearance of animals with skeletons, bilateral symmetry, appendages, brains, eyes, and digestive tracts that include mouths and anuses.
  5. Virtually every eye design that has ever existed appears simultaneously in the Cambrian explosion.
  6. The moment oxygen levels in Earth’s atmosphere and oceans permit the existence of Cambrian animals, they suddenly appear.
  7. The Cambrian explosion occurs simultaneously with the drastic change in sea chemistry known as the Great Unconformity.
  8. The Cambrian explosion includes the most advanced of the animal phyla, chordates, including vertebrate chordates.
  9. Both bottom-dwellers and open ocean swimmers appear simultaneously in the Cambrian explosion.
  10. Optimization of the ecological relationships among the Cambrian animals, including predator-prey relationships, occurred without any measurable delay.

Fossils found in Yunnan province of China (at sites discovered nearly 100 years ago) and in the Burgess Shale deposits of the Canadian Rockies tell us that all animal phyla (more than 70) ever to exist in Earth’s history appeared “at once” during the Cambrian Explosion. Some 40 phyla have since disappeared and not a single new one has appeared since. This “burst” of life occurred in an extremely narrow window of geologic time, about 5-10 million years. Evidence from the Yunnan sites possibly narrows this window to less than 3 million years. Could 90+% of life have evolved in just 3 million years?

So the question becomes again, are the scientific theories of life's origin statistically possible in the context of the natural law of probability? When Darwin proposed his theory of evolution, the cell was barely visible under a primitive microscope. Scientists thought of it as only a blob of protoplasm. They could not see or know the vast complexity that is a living cell.

Up until the mid-twentieth century, science had considered the universe as eternal. This offered infinite time for infinite evolution and made probability considerations irrelevant. But then science moved to the big bang theory, which states that the universe had a beginning, limiting time for evolution. These time limitations make probability considerations crucial. It is statistically improbable that life as we know it could arise from a primordial soup in even a billion years. Given that, if life should appear, the current scientific theory then predicts a gradual evolutionary process in which simpler life-forms would be expected to appear first, followed by the more complex. Instead, the fossil record suggests "punctuated equilibrium" - long periods of stability followed by short bursts of change.

God could have again nurtured (The Hebrew word "râchaph") His creation, even manipulating the genes He created, in such a way as to "punctuate" life (and thus the fossil record) with rapid spurts of diversity in physical form and function. Molecular biologist Kenneth R Miller suggested as much when he said:

"A clever and subtle God [might] influence events in ways that... could include the appearance of mutations. ...Enormous changes in physical systems can be brought about by unimaginably small changes in initial conditions [which] could serve as an undetectable amplifier of divine action."

Psalm 104:27-31 (NIV) - "All creatures look to you to give them their food at the proper time. 28When you give it to them, they gather it up; when you open your hand, they are satisfied with good things.29When you hide your face, they are terrified; when you take away their breath, they die and return to the dust. 30When you send your Spirit, they are created, and you renew the face of the ground. 31May the glory of the LORD endure forever; may the LORD rejoice in his works!"

Saturday, December 31, 2016

A New Years Resolution Revisited - The Chemistry of New Beginnings

On this day five years ago I wrote this entry about New Years Resolutions. With the rough and tumble year we just went through - from sports (Chicago Cubs) to politics (presidential election) to world events (terrorism) - I think this post is still, if not more, relevant today for 2017.

Tonight at Midnight, for most of the World anyway, the year will click over to 2012. And with it the opportunity for a fresh start, a new beginning if you will. In our physical world of time and space everything has a beginning. The day has a beginning, as does the month and the year. We had a beginning at our conception and then our birth. Our Nation and all of the nations of the world had beginnings at some point in the history of mankind. And all creation had a beginning, at the Big Bang when God spoke the Universe into existence - Genesis 1:1ff (NIV).

For many, tonight will be a night to celebrate - party with friends, watch the ball drop in Times Square or the fireworks in Sydney or Hong Kong. Some will party too much and regret it tomorrow. For some they will meet their end before they can even begin the new year. For all of us, we need to look at the new year and this time of new beginnings as an opportunity for change. Change for the world (World Peace), change for our country (an improving economy) and change for ourselves (make a lifestyle improvement).

Every year many of us make new years resolutions, and many of us fail to keep them, in spite of our best efforts. Estimates show that about 62% of all adult Americans make at least one new years resolution. Of these 75% last a week, 64% a month and 46% last for 6 months. Only 8% keep their resolution for the full year. Even with the poor odds of keeping your resolution for the full year research shows that people who make resolutions are 10 times more likely to attain their goals than people who don't. There is something about having specific, written goals that helps to keep us on track. It gives us an identified target to reach and a sense of hope that when we do reach it, we will be better for having made the effort.


Character is the ability to carry out a good resolution
long after the mood in which it was made has left you.
Cavett Robert

To keep a resolution well made requires hard work and determination. As the quote implies, many a resolution is made without forethought as to how it will be carried out. We have all heard the story of "the boy who cried wolf." When he finally spoke the truth he was not believed. If we make lighthearted resolutions and then do not keep them, it is a reflection on our character.

The concept of character implies a variety of attributes including the existence or lack of virtues such as integrity, courage, fortitude, honesty, and loyalty, or of good behaviors or habits. The Bible defines character as any behavior or activity that reflects the character of God. The Book of Genesis (Genesis 1:26ff NIV) says that God created man in His own image. Consistency of character is regarded as integrity - the honesty and truthfulness or accuracy of one's actions. We are judged to "have integrity" to the extent that we act according to the values, beliefs and principles we claim to hold.

So as we make those same resolutions again this year - lose weight, get fit, quit smoking/drinking - lets make a resolution together much like the one expressed on the left side of the card above: Live a simple, sincere life... cultivate cheerfulness and charity... be frugal in expenses, careful in conversations, diligent in service... and have a child-like trust in God to care for us in all things.

Happy New Year!

Ephesians 4:31-32 - "Get rid of all bitterness, rage, anger, harsh words, and slander, as well as all types of evil behavior. 32Instead, be kind to each other, tenderhearted, forgiving one another, just as God through Christ has forgiven you. (NLT)"

Thursday, December 8, 2016

Turning Outward Part Two - The Earth Around Us

By looking at just 25 of the over 300 finely tuned parameters that must be met to have the chance at life, we have seen that the odds of random chance producing a universe like ours, with a galaxy like ours, with a solar system like ours, with a planet like ours is infinitesimally small. Turning this around we see that the odds against such an occurrence are astronomically great. This shows that we would not exist if it were not for the supernatural intervention of God in our physical world to "hover" over us and gently move creation to that endpoint of supporting life, and then creating life in His image. Genesis 1:2 says, “The Spirit of God was hovering [râchaph] over the waters.” The Hebrew "râchaph" is used in Deuteronomy 32:11 (NIV) to describe an eagle nurturing her young.

In this blog we will look at a few more of the "finely tuned parameters", those related to the Earth itself, but we will skip the calculations as the odds are already weighing heavily towards a Creator. So as mentioned last time, we consider this:

Turning Outward - Proverbs 25:2 (NIV) - It is the glory of God to conceal a matter; to search out a matter is the glory of kings. - Finding God in the world around us.

Earth poster When we look at the earth, we are considering how it can be a place to allow life to form and flourish. The emphasis here is on the land masses and what is needed to provide an environmentally stable (water, oxygen, carbon based nutrients) place for life.


Thickness of the Earth's Crust
The crust is the outermost solid shell of a rocky planet. On Earth it is about 20-30 miles thick and composed of mineral rock and is covered with decayed organic matter. The crust occupies less than 1% of Earth's total volume. It, together with the uppermost part of the mantle, on which it rests, is called the lithosphere. Because of the hardness of the crust and the molten, fluid movement of the lower mantle (due to the heat within the Earth's core), the Earth's crust is broken into numerous plates that "float" on top of the lower mantle.

If the crust was much thicker, It would adsorb too much oxygen from the atmosphere and there would not be sufficient oxygen in the atmosphere to sustain life as we know it. If it was much thinner, volcanic and seismic (earthquakes) activity would be too great, creating a very unstable environment for life. (probability of 0.01)


God has made the Earth for Life
And placed us here for a Purpose

Seismic/Tectonic Activity
Seismic Activity, although potentially devastating, are essential to life. Movement of sections of the tectonic plates along fault lines produce earthquakes, movement along plate borders is considered continental drift. Such movement helps to recycle the crust, bringing nutrients and other needed chemical changes to the surface.

If seismic activity is too great, too many life-forms would be destroyed. If seismic activity is too low, nutrients from river runoff found on the ocean floors would not be recycled to continental surfaces through tectonic movement. Also, insufficient carbon dioxide would be released from the crust and mantle to balance the atmosphere. (probability of 0.05)

Volcanic Activity
The temperature of the Earth's crust and mantle increase as you go deeper under the surface. At the boundary between the crust and the mantle, temperatures range from about 200 °C (392 °F) to 400 °C (752 °F). As you go deeper into the mantle, the temperature increases dramatically, resulting in liquid rock. This molten rock and a buildup of gases results in volcanic explosions that spew volcanic ash and lava out onto the surface, bringing carbon dioxide gas, water vapor and minerals to enrich the soil.

If volcanic activity was lower, insufficient amounts of carbon dioxide and water vapor would be returned to the atmosphere and soil mineralization would be too low to support life. If volcanic activity was higher, the excessive eruptions of gas and ash would be deadly to life, advanced life at least. (probability of 0.1)

Forest and Grass Fires
Fire also is a requirement for life. It is needed to destroy old growth and return nutrients to the soil to promote new growth. The quantity and extent of such fires is critical to the development of advanced life as we know it.

If these fires are too small and too rare, growth inhibitors in the soils would accumulate, bound nitrogen in the soil would be insufficient and charcoal production for adequate soil water retention would be limited. If there were extensive fires too many forms of plant and animal life would be destroyed. (probability of 0.01)

Water Absorption within the Mantle
The movement and storage of water within the planet's mantle is necessary to supply water for the planet's surface and to cycle carbon, calcium, silicon and other minerals from the mantle to the surface and back through erosion, thus supplying necessary minerals for life and balancing out the levels of carbon dioxide in the atmosphere. It also impacts plate tectonics and mantle convection, the latter of which allows heat movement to the surface from the core, helping to balance out changes in the luminosity (heat and light production) of the planet's star (the sun).

If water absorption is too low, too much water will remain on the planet's surface covering any land masses and reducing plate tectonics, thus reducing survival rates of any land-based life. The mantle will also become too viscous, further reducing plate tectonics and the convection of heat from the mantle to the crust, decreasing surface temperatures.

If too high, there will be too little water on the planet surface, disrupting the water and carbonate-silicate cycles, increasing plate tectonics, reducing mantle viscosity and promoting the convection of heat to the crust. All this will result in higher temperatures on the surface of the planet, impacting life. (probability of 0.01)

Because the Earth meets all of these diverse "requirements" for supporting life, it has exploded over the millennia with an extremely diverse variety of life forms. Planets, animals, bacteria and fungi. Symbiotic relations between them. Organisms that can survive under the pressure of the depths of the oceans, the boiling heat of geothermal crevasses, and the cold winds and ice of the Antarctic. Amazing molecules - like water, that are required for life. The Earth has existed for 4.5 billion years with the possibility of life existing for the last 3.8 billion. Could all of this be due to random chance - evolution? Or did it require a creator God?

Albert Einstein said, “The harmony of natural law reveals an intelligence of such superiority that, compared with it, all the systematic thinking and acting of human beings is an utterly insignificant reflection.” An orderly universe, as we have examined in the last few blogs, has traditionally been seen as “proof” of a creator God who ordained natural law.

Next we will move to "Searching Inward" - finding God in the existence of life; specifically finding God in the formation of the human body.

Thursday, November 24, 2016

Thanksgiving Revisited - The Chemistry of a Blessing

Five Thanksgivings ago, I posted this blog entry. I pray that all of us will remember the blessings we have received over the years when we take the time this year to be thankful.

A few years back, in 2000, there was a movie out called "Pay It Forward." The premise of the movie was to pass on a blessing to someone, with nothing expected in return. In the movie Trevor McKinney, troubled by his mother's alcoholism and fears of his abusive but absent father, is caught up by an intriguing assignment from his new social studies teacher, Mr. Simonet. The assignment: think of something to change the world and put it into action. Trevor conjures up the notion of paying a favor not back, but forward--repaying good deeds not by payback to the original person, but with new good deeds done to three new people. As he works on his assignment, it transforms his life and all of the lives of those touched by the ever-growing circle of good deeds.

Thanksgiving is a day to remember all who "Paid It Forward" to and for us. Before 1863 it was being celebrated separately in many states on different dates to commemorate the original Thanksgiving from 1621 when the Pilgrims and Indians gathered for a harvest celebration. The day was established by Abraham Lincoln as a national day for our country to celebrate all of the blessings we have. He set forth a proclamation on October 3rd, 1863 (now a 153 year tradition), in the middle of the Civil War no less, to set apart the last Thursday of November "as a day of Thanksgiving and Praise."


Thanksgiving was set apart by Abraham Lincoln
"As a day of Thanksgiving and Praise
To our beneficent Father who dwelleth in the Heavens"

Here is the Proclamation:

      "The year that is drawing towards its close, has been filled with the blessings of fruitful fields and healthful skies. To these bounties, which are so constantly enjoyed that we are prone to forget the source from which they come, others have been added, which are of so extraordinary a nature, that they cannot fail to penetrate and soften even the heart which is habitually insensible to the ever watchful providence of Almighty God.

In the midst of a civil war of unequaled magnitude and severity, which has sometimes seemed to foreign States to invite and to provoke their aggression, peace has been preserved with all nations, order has been maintained, the laws have been respected and obeyed, and harmony has prevailed everywhere except in the theater of military conflict; while that theater has been greatly contracted by the advancing armies and navies of the Union.

Needful diversions of wealth and of strength from the fields of peaceful industry to the national defense, have not arrested the plough, the shuttle or the ship; the axe has enlarged the borders of our settlements, and the mines, as well of iron and coal as of the precious metals, have yielded even more abundantly than heretofore. Population has steadily increased, notwithstanding the waste that has been made in the camp, the siege and the battle-field; and the country, rejoicing in the consciousness of augmented strength and vigor, is permitted to expect continuance of years with large increase of freedom.

No human counsel hath devised nor hath any mortal hand worked out these great things. They are the gracious gifts of the Most High God, who, while dealing with us in anger for our sins, hath nevertheless remembered mercy. It has seemed to me fit and proper that they should be solemnly, reverently and gratefully acknowledged as with one heart and one voice by the whole American People.

I do therefore invite my fellow citizens in every part of the United States, and also those who are at sea and those who are sojourning in foreign lands, to set apart and observe the last Thursday of November next, as a day of Thanksgiving and Praise to our beneficent Father who dwelleth in the Heavens. And I recommend to them that while offering up the ascriptions justly due to Him for such singular deliverances and blessings, they do also, with humble penitence for our national perverseness and disobedience, commend to His tender care all those who have become widows, orphans, mourners or sufferers in the lamentable civil strife in which we are unavoidably engaged, and fervently implore the interposition of the Almighty Hand to heal the wounds of the nation and to restore it as soon as may be consistent with the Divine purposes to the full enjoyment of peace, harmony, tranquility and Union."

     
We in America are truly blessed. We have all we need and then some. Even the poorest among us are generally richer than many in other countries. We have much to be thankful for. Recently with the "Occupy Wall Street" movement (or this year, a division over the national election results) and a general sense of entitlements that seems to be growing in our country, we are putting our blessings at risk. Paul states in 2 Corinthians - "Remember this: Whoever sows sparingly will also reap sparingly, and whoever sows generously will also reap generously. Each man should give what he has decided in his heart to give, not reluctantly or under compulsion, for God loves a cheerful giver. And God is able to make all grace abound to you, so that in all things at all times, having all that you need, you will abound in every good work." 2 Corinthians 9:6-8 (NIV)

Remember today to thank God for all that He has done in your life and in the lives of those around you. He is the giver of the day and the source of our strength. Remember the blessings you have received and "Pay It Forward" to all around you, with no expectation of return.

2 Chronicles 7:14 - "If My people, who are called by My name, will humble themselves and pray and seek My face and turn from their wicked ways, then will I hear from heaven and will forgive their sin and will heal their land." (NIV)

Friday, November 11, 2016

Veteran's Day -The Chemistry of Freedom - Revisited

I wrote this short blog entry five years ago for Veteran's Day. I wanted to repost it this year. It is still true, we owe our freedoms to the many men and women who dedicated themselves, for a season or a lifetime, to preserving the freedoms we now enjoy in this country. Many made the ultimate sacrifice to protect those freedoms. Remember them all today.

SBDs and Mikuma-crop About a month ago my wife and I visited her Aunt in San Antonio. She had recently moved to a new home and her brother was visiting from Brazil for the first time in about five years. It was a great family reunion. At one point the talk turned to her husband who had passed away a few years back. He had been an Air Force pilot in WWII and had flown 42 missions, many over Germany during a number of fierce air battles. She had a picture that was taken from one of the planes in his squadron showing bombs exploding, sending deadly chunks of metal shooting in all directions, aimed at taking out the low flying planes. He was in one of those planes.


Freedom is Not Free
We Must Fight to Preserve It

My uncle was a rear gunner in the same war, fighting over the Pacific during the battle of Midway. He was only 19 at the time. Both of our uncles survived, living into their 80's. We were lucky they made it home to tell their stories.

Since that war we have had Korea, Vietnam, Iraq and Afghanistan to name a few. Before WWII there were numerous wars as well, WWI, the Civil War and of course the Revolutionary War, our original call for freedom. All of these battles, right or wrong, were fought in the name of freedom. A freedom America continues to fight for, all over the world, for all of those oppressed by tyranny.

Today is Veteran's Day. A day we remember those who fought to establish and protect the freedoms we can so easily take for granted. It takes a special kind of individual to risk their life in the defense of another. If you see a soldier, thank them for their service. If you know a family who has a loved one deployed overseas, spend some time with them. If there is a family in your circle who has lost a loved one in the line of duty, comfort them. Most of all say a prayer and thank God for the blessing of these brave men and women. Without their courage and dedication, both past and present soldiers, we might not have the rights and freedoms we now enjoy. We owe a debt of gratitude to them all.

Isaiah 53:12a - "I will give him the honors of a victorious soldier, because he exposed himself to death. (NLT)"