The questions on the creation of mankind and the inner workings of the universe have been the primary issues that have had a profound impact on both modern, secular philosophy and traditional religion. Our collective experiences in natural sciences and educational disciplines have taught us that certain models can be developed to help us comprehend the functioning of the universe.

One of the fundamental questions in this respect relates to how a great deal of orderliness and discipline is possible in the universe despite its immense scale. Exploring the potential of this orderliness encourages our curiosity to examine life at the most minuscule level, and some scientists aim to explain this perceived system within the universe via an idea called “the Computational Universe.” In this article we will discuss how this idea can be considered to support the perceptions of monotheistic belief. In scientific literature, the term “computational” refers to anything that possesses any relationship to complex calculations, as various disciplines such as physics, chemistry; the term is used even by the discipline of psychology.

Thanks to relatively recent developments and discoveries in science, we are able to better understand the events in our world and universe. To put it into perspective, humanity was deprived of certainty on the shape of the world up until several centuries ago. However, scientific developments, especially during the 19th and 20th centuries, formed the basis of the stunning technological developments that we live with today. Comparatively, it could be argued that what we know, comprehend, and understand about the universe that we live in is only a small fraction of what the universe actually contains. Continuous developments in science and technology help us understand more and more about the way the universe works. “Our science and applications to space technology have evolved by improving our abilities to measure, test, and analyze physical events and by developing their mathematical models” (Fontana 2005).

As humanity began to uncover some of the codes by which our universe is made to function, we have been using these rules to make our lives easier. This is common human behavior: we learn new things and try to use them to improve our lives. In fact, human technology has advanced so much that we now have machines that can move and function like a nano-universe. Basically, we are giving them a code, a sheet of rules to function in the way we desire. As a result, we are much less dependent on physical labor; for instance, we now can farm with high-tech machines instead of our hands.

New ideas are born with these emerging technologies and with more ease than they were back in the old days; thus we have had a progress at an exponential rate. Looking at all these historical aspects and experience , some scientists conclude that the universe we take part in might be a “mother computation” and all of these things that keep the universe well-oiled and functioning might be parts of codes and commands coming from this mother computation.

The argument does not end at whether we live in a computation or not though. From that point, people who believe that we live in a mother computation split sides, with some providing the explanation that we are real, and this is reality, but controlled by a mother computation. This group argues that everything that happens around us is part of reality, just like we are, but that they function via a code that was inserted into their cores in order for them to work the way their coder wants them to.

The other school of thought challenges the vast majority of conventional theological thought and logic. This argument agrees that we do live in a computation, however that this life is not reality. Events in the universe, including our lives are just a simulation, and we are test subjects.

“Several physicists, cosmologists and technologists are now happy to entertain the idea that we are all living inside a gigantic computer simulation… Our instincts rebel, of course. It all feels too real to be a simulation. The weight of the cup in my hand, the rich aroma of the coffee it contains, the sounds all around me – how can such richness of experience be faked?” (Ball 2016).

Though this idea of a computational universe appears to be new because of the fact that computers and digital simulations appeared only a few decades ago, its origins go back to antiquity. Some of history’s greatest minds, such as Plato and Descartes, have actually provided their views on this concept even without these technologies being present at the time. They questioned reality and dug deep into life and how we perceive everything around us, however their arguments were not widespread among their contemporaries because they had no proofs to support their controversial ideas that challenged everything that people believed.

So, is the universe a mother computer or a giant computer simulation?

It is widely accepted by almost all people that there are principles and rules by which the universe is governed and which we can observe on both the macro and micro levels. Events are considered supernatural or miraculous if they take place outside of these principles. Therefore, scientific findings may allow us to develop a deeper appreciation for the “computational” orderliness that can be found in our universe among the orbits of the planets down to the multitude of complex ecosystems that exist across our world in a variety of different biomes.

Religious traditions

From the perspective of monotheistic religions, it is believed that the Creator creates and pursues everything with an order in the universe, which allows the universe to keep working in a perfect balance. The universe’s orderliness, especially that which occurred during its creation, is stressed profoundly in the holy books. For example, it is stated in Genesis 1-2 that the creation of the entire universe occurred in “six days,” and this process was described day by day in the relevant verses. This implies a certain order in the development of events during the creation of the universe.

A certain orderliness is also clearly declared in the Qur’an: “He to whom belongs the dominion of the heavens and the earth … has created each thing and determined it with [precise] determination” (2:25). Today, the scientific community explains this order and design in the universe with concepts such as the “Anthropic Principle.” According to this principle, the universe possesses such perfect features that it could not have arisen by chance without purpose. The situation can be understood more thoroughly if major examples of design existing in the universe are briefly examined. Doing so, we will find out several aspects of this principle that we encounter in our daily lives, which in turn will lead us to further understand God’s complex creation of the universe.

Based upon the evidence that some scientists have shown that a starter leads off, like a coder writes codes, in order for the universe to function correctly and in a perfect continuity, the faithful of religious traditions might reasonably suggest that this entire universe is just like a computer created by the Creator who continuously controls it by constantly creating new every moment for it to function as the codes are based on His commands. This rationale is the essence of and consistent with not only monotheistic religions but also in many ways with other belief systems.

Overall, the concept of a “mother computation” placed on duty in the functioning of our universe is not just a singular subject but instead a comprehensive set of ideas people have focused deeper. While, according to some, there is indication for the universe being a reality and being controlled by a “computer,” according to others, there might also be indication for how the universe could also just be a simulation. A team of physicists working at the University of Bonn claim that they have come up with a measurable way of showing that our universe is indeed “simulated” (Yirka 2012). The main focus of their paper is that in order to create a simulation of our universe, there has to be a three-dimensional framework to represent real world objects and processes. But the problem is, this paper is based on only what we know of reality today. This means that an exact copy of our universe would be impossible to create until the end of time, when we have all the knowledge that the universe presents us with – the entire idea splits right at this point.

Religion also becomes a separate argument along with these two different beliefs. Monotheistic religions believe in an Almighty God, who creates ex nihilo and put things in order in a perfectly “computed” order. God, in these traditions, are also believed to sustain all the existence by constant governance; as a matter of fact, everything is an outcome of the manifestation of God’s names and attributes – nothing comes out outside of His Divine realm and authority.

With there being many more religious traditions and philosophical approaches in this world, many different ideas can emerge as possible theories. In regard to the idea of the world being a computation, scientific theoreticians cannot definitively know for sure whether we live in a computational or fundamental reality, and do not speculate on who might be the one who programs this computer that way. Religious traditions, however, take one more step and claim if there is a computation, then there must be an agent who makes it possible and wills the world to be as it is rather than something else. Otherwise, claiming the universe to be a mother computer on its own would be no different than believing in nature to be the creator of everything, as opposed to nature itself being a created being.

While the computational model seems to support the arguments of believers in terms of explaining that there is an established order in the universe and that this order operates within certain laws and rules created and maintained by a creator in a perfect continuity, thinkers and philosophers may come up with different explanations in their own words and formulations to understand creation and life as we know it.

The mysteries of the universe offer us an expansive space to bring about the best of our rational and spiritual capacities, so our existence in this life becomes a meaningful one.

References

• Giorgio Fontana. “Why we live in the Computational Universe,” https://arxiv.org/ftp/physics/papers/0511/0511157.pdf.
• Philip Ball. 5 September “We might live in a computer program, but it may not matter” http://www.bbc.com/earth/story/20160901-we-might-live-in-a-computer-program-but-it-may-not-matter.
• Bob Yirka. 2012. “Is it real? Physicists propose method to determine if the universe is a simulation,” Phys.org.

We perceive several problems related to the functions in many situations in life and develop solutions accordingly. The function shows the effect of one (or more) variable(s) on another variable. In simple terms, one factor can be called the transformation of another factor. When you send a piece of mail by cargo, you pay according to the weight of your cargo. Or imagine using an hourly Internet service in a library or airplane; the more hours you use the Internet, the more you pay.

A group of people want to rent a bus. The number of people does not affect the cost of rent for a bus. However, the cost per person could change depending on of the number of people. The more passengers, the less fee they pay for each passenger. Conversely, if the number of passengers is less, the cost of the bus fee could be more.

The examples are given above help to understand the mathematical function more easily. We perceive several problems related to the functions in many situations in life and develop solutions accordingly. The function shows the effect of one (or more) variable(s) on another variable. In simple terms, one factor can be called the transformation of another factor.

Consider shipping by mail. There are actually two situations here; the weight of the cargo sent and the amount of money paid based upon the cargo’s weight. This gives us a hint for the payable amount. For example, we may know how many pounds of cargo can be sent for $10. We also may calculate how much money is needed to ship 5 pounds of cargo. We can formulate this shipping problem:  Let x be the weight of the cargo and let y be the amount to be paid. In addition, for each parcel sent, including taxes, let us assume that it costs $3. In this case, we get an equation such as y = 2x + 3. Here, the number 2 given in front of the variable x is the money paid per pound. We calculate how many dollars we will pay for a 4-pound cargo: (2×4) + 3 = $11. If 2 dollars per pound is received, a 4-pound package shipping fee is 11 dollars.

Another example would be the use of the Internet. If 40 cents is requested per hour, $1.2 will be given for 3 hours of internet usage. Thus, the equation can be written as y=40x, where x is internet usage time per hour, y is amount to be paid.

The bus rental example is slightly different from the above two examples. Although this example specifies the function, this time there is a reverse situation. In the first two examples, like (x or) input increases, (y or) output will increase. In the case of bus rental, the bus rental fee is fixed and as the number of passengers increases, the payment per person will decrease. Let’s say $400 is required for the daily rental of a bus. 40 people pay $10 per person while 8 people pay $50 per each person.  This equation would be; y=400/x, where x is the number of people, y is the amount of money paid per person. Functions are important in understanding the relationship between two variables.

Life is a function. In mathematics first, what is the function in its simplest form? Let us give the known definition in schools.

Function: Let A and B be two sets different from the empty set and there is a relation f from set A to set B. If the relation f associates each element of the set A to one and only one element of the set B, this relation is called the function from set A to set B. It is shown as f: A→B or A→B. A is called the definition set of the function and B is called the set of values. A set of elements that match the elements of set A in set B is called the set of images of the function and is denoted by f (A).

In this case, if we clarify the definition a little, a relationship from A to B to be defined in order to function f; the following conditions must be met:

1. There should be no elements in the definition set that do not have an image. However, the element can remain exposed in the value set.
2. Each element in the definition set must not have more than one image.

Let us try to find the reflections of the definition in our lives. We assume that A is the world in which we live. If we say “World” for Set A (Definition Set), we would call Group B “the Afterlife” (Value Set). Because there is a connection from this world to the other world. We will see our values in the afterlife against what we do in this world. As someone who fits the definition of a “good” person will be of high value, the definition of a “bad” person will consequently result in a lower value. So, set A considers the world and its elements as ‘living people’. We can think of all the people in the world and include them in this group since life is finite for all of us. The mathematical meaning of this reality is the following:  all elements will be moved from set A to set B (Let A and B be two sets different from an empty set and a relation f from set A to set B.). There is such a connection (or relation) that one who leaves the world cannot go to two places at the same time. Destinations are clear: abode of reward or abode of punishment. We will all be eventually placed into one of these two groups. In some cases, the last stop of the people will be paradise, even if there are those who go to hell first and purify their sins. Consequently, in the last case, no one will be in two places at the same time (If the relation f associates each element of the set A to one and only one of the set B, this relation is called the function from the set A to the set B).

Just because everyone has one final destination does not mean that that destination can only hold one person. If the levels of Heaven and Hell are considered correctly, it is possible that there is more than one person for each level or that no one has come to that level. It is possible that there are those who have sinners at the same level. We can speculate that there may even be such a level that is inaccessible to all people. The Creator creates such places in order to show His grace, mercy, and power. (In the definition set, there should not be any elements without an image. But in the value set, there may be exposed elements.)

Life itself is a function. God created life according to certain rules. We should do our best to explore, find, and use these rules. Seeing the beauties of life and being amazed by the astonishment and capturing happiness in both worlds is achieved by seeing the manifestations of God everywhere.

Serge and I were buddies. Our interests were largely similar. We were both interested in Oriental mysticism, travel literature, art, architecture, and ceramics. 

“The mystical part about making pots is whether you are in a good state when you make them, or anything else. Trying to achieve a good state by throwing pots as a therapeutic undertaking must be difficult. No, the state comes first and everything else follows,” I suggested.

“Sounds rather obvious,” Serge said.

“That’s the trouble, really. We expect our jobs, our hobbies and everything else we do, to give us peace. Of course, we must do our work with our minds, but the mind had better be in abeyance or you have no chance of creating anything worthwhile.”

“But artistic aspirations…?”

“I like basic aesthetics. Slender pots appeal to me more than fat ones. A fairly minimalist approach is evident. A traditional Japanese house delights me. I too, of course, wish to be empty.”

“How about architecture?” he asked.

“It is about form, which by necessity is governed by function. I greatly admire architects and I can feel their dilemma when attempting to combine form and function. The great architects give us spaces that are comfortable for our interior worlds. “

“But empty…?” Serge prodded.

“I suppose I mean the ability, the luck or grace to receive vision. I am convinced that any artistic endeavor begins with an inner vision. A quiet mind is almost a prerequisite. Then comes the work of getting stuff made, which I contend is the job of the mind. I once read that Mozart claimed to have seen music floating before him; he then had the task of getting it all down as sheet music.”

“So you equate throwing pots with a mechanical process,” Serge said.

I explained: “One obviously must learn the mechanics. I spent a year at art school learning how to throw in series. I was fanatical and everyone said I was crazy because I never fired anything. I once worked on a Greek island and was made aware of Greek potters who have little or no artistic ambition. They see working with clay in the same way that a mechanic works on a car. I heard about one potter in Athens whose wheel head never stops turning. Balls of clay are usually weighed to make certain pots and one then places the ball on a stationary wheel head, gets the thing turning, throws the pot, stops the wheel and cuts off the pot to be placed on a board. The man in Athens simply grabs a chunk of clay of about the right weight, whacks it on to a running wheel head, centers and throws the pot and cuts it off and removes it while the wheel head is in motion. He does that all day long, hour after hour.”

“Wasn’t it the Bauhaus people who spoke about a machine for living?”

“Sure,” I said. “But for them function was an aim. The rest was a philosophy of de-cluttering. Décor art also has a function, I hope, because it can get people forgetting themselves, if only momentarily, which I believe is the best way to experience pleasure.”

“What do you mean by forgetting yourself to experience pleasure?”

“It is quite clear – and many doctors and psychologists agree – that the activity of the mind can be repressive. Mental activity is seldom conducive to healing if taken to an extreme. A patient’s first thoughts are naturally the stuff of concern and the need to seek help! If the patient can surrender his or her condition completely to the expertise of the doctor, the doctor’s task is simplified because the patient’s mind does not meddle with the doctor’s work. More important, the mind is placed in abeyance and permits, or releases, the flow of a natural healing process.”

Serge was confused. “But how does creativity come into it?” he asked.

“One could say that any flow of natural energy, meaning not mind-induced, could be pleasurable. But it is not simply a question of absolute faith in a doctor because the mind in this very complex world has often formed what in German is known as an Eigendynamic, a life of its own, which means that the mind could take control of a person’s life and becomes a personal, overriding function. That which should be a person’s servant has then reversed the roles.

“Most people find a feeling of equanimity in a state of passive focus. I once attended a concert featuring Ella Fitzgerald and a jazz trio. The lady was in such fine form that within a few minutes she had captured the attention, the hearts, and the minds, of the entire audience, thus giving them a release from self. The feeling of euphoria was utterly palpable. Any great artist can give this grace to people. To look at a Rembrandt, at least for the first time, can be stunning – meaning, the mind is stunned. Bach, Beethoven, Mozart, and many more, were capable of offering such grace. I would suggest that truly great artists are themselves in a state of mind abeyance, as mentioned above, when creating their pictures, sculpture, music, literature, and architecture. Great artists ‘receive’ rather than ‘conceive’ their works.

“We are encouraged to be selfless, to simply let go of the thoughts that constantly bug us and turn to what we instinctively know to be true. True art, design, architecture, and hopefully ceramics, can therefore not only be pleasing but also beneficial.”

“Is humankind sick?” he asked.

“Not at all but there does appear to be a widespread feeling of dissatisfaction as we travel down our days. We have little repose. You might say we don’t give ourselves a chance to be truly happy. Was it Krishnamurti who said that there is only one thing between you and God: you. Get out of the way.”

“So you think a mystical approach would be useful?”

“I really do believe that, but, naturally, one would need the time to get quiet. Having a family, a job, earning a living and all the rest is hardly conducive to achieving equanimity from the outset. I can now make ceramics at my leisure but I admire those creative people who are able to achieve great work within the hustle of daily life, especially the young ones.”

“Looking at the pictures, there seems to be an ‘Asian’ approach to your ceramics.”

I said: “The master-potter, Bernard Leach went to Asia to learn about ceramics. He returned to England in 1920 and brought the Japanese master, Shoji Hamada, with him. Hamada and Leach showed us the possibility of selfless pottery making. They constructed and fired a wood-burning kiln, which, opposed to the radiant heat of an electric kiln, brings out the inherent qualities of the clay beneath a glaze. This is achieved by reducing the air intake at a critical point during firing because, obviously, a naked flame requires oxygen to keep burning. Thus the flame starved of oxygen seeks oxygen in the glazes and the clay. The result is buttery textures and some marvelous hues. I have a potter friend, however, who studied with Leach and he said it took years to escape from his influence.”

“But what of selfless pottery?”

“Again, it is the state of having one’s mind in abeyance. Leach maintained that if six potters were to each make a simple tea bowl and one of the potters was in a quiet state the result would be noticeable. In fact, he said that eight out of ten observers would instinctively choose that one bowl.”

“This would seem to imply meditation,” Serge said.

“I have nothing against meditation, but I never did it.”

“So what is your approach?”

“I do nothing really special: just get quiet, relax, begin, and watch what happens. I’m sure many others are happy with the way they operate.”

“Is there a learning process, in all this?”

I told him, “It’s like learning to drive a car, which is initially undertaken as a mental process. Beginners tend to be nervous. Gear changes get snarled, the rear-view mirror is largely forgotten, and so on. The mechanical learning process gradually becomes internalized and a natural flow takes over. Gear changes and all of the other skills become automatic. When this has occurred the mind is set free to concentrate, although focus would be a better word, on what is coming at you on the road.”

“So how did you learn?”

“It may sound far-fetched but one might say that the hands learned what to do. There is a marvelous video on YouTube showing the jazz guitarist Stanley Jordan playing a number (Jumpin’ Jack). Jordan has the ability to play melody and bass simultaneously, somewhat in the way a pianist plays. Deep into his solo one sees Jordan looking down at his hands and there is a smile on his face that seems to say ‘…hey, you guys are really having a good time.’”

“Oh come on, jazz and a quiet mind?”

“Jazz means improvisation engendered by freedom. The freedom from self, conflict, and anything else that hinders creativity.”

“Of course it would be impertinent to speak for other artists but I love the idea of what the Japanese call Shibui. It is a feeling engendered by quiet reticence, something that gives pleasure for reasons beyond explanation. I suppose it means a special rightness about something. Since I am not a Mozart, I do not expect to stun or startle with my work. I am satisfied if a bit of Shibui arises through a combination of shapes and glazes.”

“Talking about shapes…” Serge said.

“As I said before I prefer slender pots; pots that narrow down to a small foot. This gives the pot an appearance of floating – is soaring too presumptuous? My bowls usually have a turned foot. It gives them a lightness that I find pleasing.”

“Have you not been copying the painter Giorgio Morandi with his still-life renderings of ceramic vessels, especially the fluted bottles or those with cut sides?”

“I had never heard of the man before you mentioned him,” I told my friend. “But Morandi does appeal. Thanks for introducing me to his work.”

“The glazes are obviously an enhancement!”

“True but there is a lot of science involved. I fire with an electric kiln because it was given to me as a gift. We are too strapped for cash to buy a preferred gas or wood-burning kiln. My glazes have therefore been things to overcome rather than just use.”

“Build your own kiln!”

“I would love to but for the time being I am where I am at. The electric kiln I use is not particularly large, 60x75x50 centimeters inside, and it does have its eccentricities. All potters have this problem and have adjusted their glaze recipes and firing cycles accordingly. After several test firings, I have been lucky to achieve a good off-white, a really luscious chocolate black, a rather startling blue, a gorgeous dark green thinning to brown on the edges. I also have a nice pale green, which is supposed to be a celadon, but never really came out that way. I am still looking for a classic Chinese tenmoku glaze that fires at 1250°. It is a wonderful black breaking to brown on thin edges.”

“Your glaze application sometimes seems somewhat free-form,” Serge said. “What is behind that?”

“Well, if you have ever tried to draw an arc or a circle you will see the distinct wobble of the line because of an unsure hand. Just swish the pencil around on the paper and the result is likely to be much more graceful. You may not achieve a perfect circle but the result will be more pleasing to the eye. Lord knows how Giotto did a perfect circle in the thirteenth century. Splash glazing is a sort of just do it endeavor. There is no foresight involved, I dribble a glaze on to a pot and…”

“Watch what happens?”

“Right,” I said. “It is again the idea of not really putting one’s mind into a thing. Otherwise I dip my pots into a bucket of glaze in the usual way. Of course, large vessels must have a glaze poured over them, but it is still uncontrolled.”

“Clay?”

“The stoneware clay I use has been great help in achieving texture, although it is not very easy to throw. I mix two clays, with and without grog. The clay is speckled with pyrite and it looks good on the unglazed parts of a pot. The pyrite also shows through the glazes, especially in the off-white.”

“There seems to be lifestyle aspect in what you do.”

“I got around to it a bit late but consider myself lucky. We have a nice old house and a small pottery room. The garden is up and running. My marriage seems to be good, although I am definitely not going to ask her opinion about that. How you live, where you live, and what you do are largely a matter of circumstance for most people. An organized human environment is rather required.”

“Do you remember us talking about Francesco Patrizi, the author of many works of philosophy and the arts?”

“That’s right. He was looking for perfection of a sort,” I said.

“Patrizi wrote a book tantalizingly called The Happy Town. The work is Utopian and an attempt to counter Thomas More’s notion of separating church and state. Patrizi proposed the integration of both. He was born into the nobility in Croatia in 1529 and had the time and inclination to consider the improvement of the world around him. La città felice was written in 1551 in Padua and was printed in Venice in 1553, when Patrizi was only 22 years old. His book proposes a topographical situation that is obviously seen as the Croatian town of Cres in its deep, protective bay, and is about achieving an ideal state. We are confronted with a man who wished to create order, but it was order-imposed. His architectural notions encompassed ‘…straight streets to enhance winds in the hot season’ and ‘…streets meandering like a river to divert winds in the winter months.’ There were to be squares and institutional buildings for commerce, but his main thrust was the stuff of social order. Fabrizi proposed two social groups, the nobility, composed of soldiers and the priesthood, and workers and peasants forming a second group. This second group in The Happy Town were not actually meant to be happy but were only to serve and ‘…not to attain a state of bliss.’”

“Ho hum for Fabrizi. Thomas More was really a humanist, someone who cared.”

“Exactly!” Serge said. “Patrizi was an architect who wished to tell people what is good for them. One debatable point about art could be about what it does to people. Should art bring people to quiet reflection – bliss would be an exaggeration in my case – or should it provoke? Personally, getting people all riled up doesn’t make sense to me.”

“So what is the message?”

“Not offending anyone’s sensibilities, which means offering stuff that calms rather than antagonizes.”

“Your method…?”

“Get quiet, relax, begin.”   

“And watch what happens?”

“That’s about it.”

There are many ongoing studies into fasting, a practice prescribed across many religions. Increasingly, there is evidence to support that intermittent fasting is beneficial to human health.

The opposite of fasting – overeating – has been revealed to be a major culprit in many illnesses, including cancer, obesity, and heart disease. For many years, the medical consensus was that fasting, i.e. prolonged hunger, too, could have deleterious effects on the human body. From kidney failure to loss of muscle, fasting was believed to be harmful – thus calling into question the benefits of this widespread religious commandment.

People of faith – including Muslims – have long believed that God wouldn’t recommend a practice that was harmful to the body. The hardships and troubles that accompany a religious practice are not too extreme for people aware of their servitude to God: they regard their trials as a testament of their faith. Part of that faith is the certainty that God wouldn’t recommend a harmful or unbearable practice.

In this article, we will share with you two unknown benefits of fasting that have been recently discovered.

Regenerating stem cells

There is a substantial body of evidence showing that staying hungry during certain periods of the day heals the body’s metabolism, hastens loss of fat, decreases oxidative stress,* and improves the functions of the tissues that make up various organs including the liver, the intestines, and the brain. The first of the two new discoveries about the underlying processes, however, provides a missing piece of the puzzle by helping us understand the incredible changes hunger triggers in stem cells.

Researchers at MIT, Duke University School of Medicine, and Whitehead Institute for Biomedical Research in Cambridge published an article recently on stem cells, indicating that part of stem cell’s mystery could lie in the oxidation (burning) of fat in the mitochondria [1]. Omer H. Yilmaz and his fellow researchers found that a 24-hour fast hastens fat breakdown in intestinal stem and special progenitor cells of rats.

To run the study, Yilmaz and colleagues let the mice go hungry for 24 hours to study the state of their stem cells. They found that the functions of intestinal stem cells increased, and fat metabolism quickened, in both young and aged mice, even during early periods of hunger. They saw that the body’s tapping into fat for its energy needs maintained the health and strength of the intestinal stem cells. Moreover, they noticed that if the aged mice did not fast, they started to lose their ability to break down and use fats for energy expenditure.

The researchers obtained more interesting results as the studies progressed. It was found that a single period of hunger for 24 hours boosted renewal of intestinal cells – and the stem cell functions increased even more significantly in aged mice. Another interesting finding was that mice with damaged intestines that were fasted recovered faster than those that were fed.

“My lab is really interested in understanding how diet, in general, can be used to improve tissue function,” Yilmaz said. “One of the tissue types I study is the intestine. In my lab we study the intestine because it’s one of the largest organs in the body. It’s also a tissue that experiences rapid cellular turnover.” [2]

The intestine is lined by a single layer of cells, Yilmaz explains, that turns over every 5 to 7 days. The workhorses of the intestinal lining and this cellular turnover are intestinal stem cells. These cells must retain a high level of function or cellular health in order to replenish the intestinal epithelium on a regular basis. Intestinal stem cells are particularly important in terms of repairing intestinal damage caused by gut infections and chemotherapy, for example.

The single layer of epithelial cells needs to be renewed every 5-7 days: the aids and enzymes secreted in the intestine for digestive and absorptive activities damage cells despite the protective mucus layer, and some other cells already burst and die as they empty their secretions. Moreover, some medications, particularly chemotherapy, cause the destruction and breakdown of the epithelial cell layer. However, fast-multiplying stem cells replenish the epithelial cells. Stem cells are very active and young and have the ability to divide and multiply continuously.

Dr. Yilmaz also says:

“As we age, stem cells in the intestine as well as in many other tissues of the body, including in the blood and nervous systems, become less functional. We believe that reduced adult stem cell function contributes to some of the decline of function associated with old age. My lab is very interested in studying low-calorie interventions to delay this decline. As a field, we’ve known for over 100 years that low-calorie states such as fasting or caloric restriction can have positive effects on tissue health and aging. We’ve seen evidence that fasting during times of intestinal infections that lead to diarrhea may promote healing of the intestinal lining, for example.” [2]

This quote emphasizes the importance of the issue. Yilmaz adds that despite all this knowledge, the cellular mechanisms of this renewal have not been discovered, and he and his team are working to find out how fasting and hunger enable this recovery.

Stem cells become happy in fat!

The researchers discovered through the experiments that the stem cell function could be brought about in hungry mice by the burning (oxidation) of fatty acids in intestinal cells. When they stopped the fat metabolism through genetic engineering, they noticed that the benefits of fasting on intestinal stem cells were negligent.

In the present dietary conditions, we obtain nearly 60-70% of our energy from carbohydrates or sugar, 20% from fats and 10% from amino acids. Yet an interesting finding revealed by Dr. Yılmaz and his research team is that we essentially obtain much greater energy from using fats once we fast. According to their experiments on mice, during fasting, the intestinal stem cells in both young and aged mice switch from carbohydrates to fats as the primary source of energy, and this shift enables improvement in stem cell functions.

It is not yet known what underlies the fat metabolism that boosts stem cell functions in response to fasting, but it is observed that stem cells work better when they burn fat. The ability to metabolize fats efficiently decreases with age.

It is likely that this hastened metabolism – encouraged by certain diets, like the keto diet, where the amount of fat ingested is raised to 70% and carbohydrate intake is limited to 5% – helps with epileptic seizures and similar neurological disorders: the ketone bodies generated during metabolism of fats are used as energy sources by the brain.

According to Dr. Yilmaz, if fasting can improve the functions of intestinal stem cells through metabolism of fats, the key is the mitochondria, the powerhouses of the cell responsible for this function. Fat metabolism, or the immediate breaking down or “burning” of the fat entering the cell, is carried out in the mitochondria. Disrupted energy generation associated with aging and decreasing mitochondria can be a reason for the brain’s susceptibility to age-related illnesses. Positive developments in brain functions can therefore be viewed in connection with the correlation between fasting and the oxidation of fatty acids.

Cleaning by fasting

Just like the spring cleaning in our homes, our cells need a thorough cleaning to function properly. Wrongly folded protein particles, remains of damaged organelles, broken molecular pieces, and aged cells that can no longer divide should be disposed out of our cellular structure. Fasting perfectly performs the task of cleaning these wastes and clearing the area in the cell.

“Everything has zakat (a means of cleaning), and the zakat of the body is fasting.” (Ibn-i Majah, Siyam: 44)
“Fasting is a protective shield.” (Bukhari, Sawm: 2)

What is autophagy?

Autophagy is the compound of two ancient Greek words: auto (self) and phagos (eating). What is meant by “self-eating,” is the breaking down and recycling of protein waste and old, impaired molecules by intracellular digestive organelles called lysosomes. In this way, proteins or cellular organelles are digested and taken out of circulation. We can liken autophagy to garbage collection.

Japanese researcher Yoshinori Ohsumi’s study, which brought him the 2016 Nobel Prize for Medicine, found that the autophagy that occurs inside the cell due to fasting or starvation plays an important role in preventing ageing, infections, and tumors. If autophagy breaks down, many illnesses may be triggered, including cancer. Conversely, if autophagy activity is regular, tumors may be suppressed – depending on the stage of development and type of tumor. Cancer research has long focused on channeling these autophagic activities. Restriction of food intake through fasting shows promise: it may protect normal cells while triggering autophagy and thus increasing the effect of cancer treatments. Autophagy might offer solutions or treatment options for other illnesses, too, including inflammatory diseases [3], neurodegeneration [4], metabolic and cardiovascular diseases [5], obesity [6], and metabolic disorders.

Preclinical studies have shown that dietary restrictions by fasting contribute to the increase of a person’s lifespan and slow the development of age-related diseases such as cancer and neurodegenerative and cardiovascular diseases [7].

* Oxidative stress: The damage caused as a result of excessive proliferation of free oxygen radicals released from foods that spike blood sugar (with high glycemic index) as metabolic waste. A good example of oxidative stress is the browning of certain foodstuff such as apples, bananas, etc. sometime after they are peeled.

References

1. Yilmaz, Omer H. et al. 2018. “Fasting Activates Fatty Acid Oxidation to Enhance Intestinal Stem Cell Function during Homeostasis and Aging.” Cell Stem Cell, Vol. 22, Issue 5, May 3, pp. 769–778.
2. Paige Brown Jarreau. 2018. “Eating (Or rather, Fasting) Our Way to Rejuvenated Stem Cells?” in Life and Tech @ LifeOmic. June 7. A Medium Corporation.
3. Cadwell K. 2016. “Crosstalk between autophagy and inflammatory signaling pathways: balancing defence and homeostasis.” Nat Rev Immunol.16 (11): 661–75.
4. Menzies FM, Fleming A, Caricasole A, Bento CF, Andrews SP, Ashkenazi A et al. 2017. “Autophagy and Neurodegeneration: Pathogenic Mechanisms and Therapeutic Opportunities.” Neuron. 93 (5):1015–34.
5. Bravo-San Pedro JM, Kroemer G, Galluzzi L. 2017. “Autophagy and Mitophagy in Cardiovascular Disease.” Circ Res. 120((11)):1812–24.
6. Lavallard VJ, Meijer AJ, Codogno P, Gual P. 2012: “Autophagy, signaling and obesity.” Pharmacol Res. 66 (6):513–25.
7. O’Flanagan CH, Smith LA, McDonell SB, Hursting SD. 2017. “When less may be more: calorie restriction and response to cancer therapy.” BMC Med. 15(1):106.

The human cerebrum is divided into two hemispheres, the right and left. These sides are not identical to one another in structure or function. The right hemisphere is in charge of coordinating functions related to the left side of the body, and the left part of the brain controls the right side of the body. To date, science hasn’t been able to explain the reason for this split.

There are other differences between the hemispheres, including functions like speech and motor skills. For example, in 90% of people, speech and hand skills are centered in the left hemisphere. However, skills such as drawing, architecture, or sense of perspective – skills that are spatial and dimensional – are dominated by the right hemisphere. While the two hemispheres are employed for various tasks, they communicate with each other. For this to happen, a structure called the corpus callosum, which contains only axons as nerve extensions, is placed between the two hemispheres and enables the transfer of information. For instance, if a needle sticks your left hand, this is perceived by the right hemisphere. In patients where the corpus callosum is missing or disconnected, when an image of a red apple is shown with the left eye closed and again with the right eye shut, the patient will report having seen no apple.

The lack of a corpus callosum is rarely encountered as a birth defect (corpus callosum agenesis). In this instance, there is rarely a deficiency when it comes to movements and sensory receptions. Activities such as speaking, standing, balancing, walking and running are almost similar to normal levels.

In the case of epilepsy, an abnormal electric current is observed in the cerebrum. The corpus callosum can be cut by surgery, disconnecting the two hemispheres in order to prevent the dispersal and transfer of abnormal electricity to the other hemisphere of the brain.

These days, this surgery is not implemented unless necessary. Obviously, performing this surgery means communication between the two hemispheres is interrupted; the tasks that are assigned to the right brain remain only in the right and the ones assigned to the left brain stay in the left. This can complicate basic motor skills. For instance, if a person wants to write or throw a ball with two hands, this task is first planned in the left hemisphere, then it is transferred to the motor-skill regions found in both hemispheres via the corpus callosum. These skills are developed via both sides of the brain and our hands, and usually one hand is better in these skills than the other. Because the left brain is usually dominant, most people are right handed.

Schizophrenia is a permanent psychiatric disease that affects a person’s emotions, thoughts, and behaviors. It means being split-minded, or the separation of the mind (in Greek, schizo means split, or divided, and phrenos means mind). In schizophrenia, the coordination between the hemispheres is disrupted and the two hemispheres intervene simultaneously to solve the same problem. Briefly, it may not cause a problem if a specific task requires only one hemisphere to be in charge; however, complications arise when both hemispheres try to solve the same job. In schizophrenic patients, it has been reported that a problem exists in the corpus callosum; therefore, communications are hindered between them. This results in a disruption.

At this point, some questions may arise. Why is our body controlled by two brain regions that have different jobs? Why do these two hemispheres communicate? What would happen if our brain was not built in two parts?

It’s hard to give answers to these questions. Sometimes, we end up with nothing to say but, “if God creates in this way, then it must be in the most beautiful form.” There is nothing useless, extra and unnecessary in the human body. But the following can be hypothesized regarding the two sided functioning of the brain: cerebral hemorrhages always occur in only one side of the brain. Speech is lost if the left side is injured, and spatial and geometrical skills are lost when the right side is injured. Therefore, maybe while a function is lost on one side, the functions of the other side are conserved.

Though the different hemispheres of the brain are in charge of different functions, they successfully fulfill their duty to activate our bodily functions through constant communication. Despite continuing clinical studies, the full extent of the brain’s power remains mysterious. Its incredible design, which allows the body to function so perfectly, is a sign of humanity’s remarkable architecture.

Various studies exist about these compartments – which controls the expression of the soul through the body, which is responsible for memory, intelligence, belief, hatred and love. The brain’s two hemispheres have different functions and specialize in different areas. For example, linguistic abilities and tongue functions are usually controlled by the left hemisphere, while musical abilities and the ability to comment and analyze complex images are controlled by the right hemisphere. However, it is not possible to state that the forebrain functions independently from the hemispheres of the brain. The Wernicke’s area, located on the upper tail of the temporal lobe, is responsible for language comprehension, and the Angular Gyrus that is a mediator between sound and vision, is responsible for linguistic and mathematical operations. For this reason, the Angular Gyrus is accepted to be related with superior consciousness and intelligence. Scientists have proven that intelligence and consciousness decrease more dramatically upon the destruction of these areas when compared to the destruction of the forebrain. Therefore, for the spiritual functions to be able to operate in the body, it’s essential that these areas of the brain function.

The more accepted view, at least today, is that spiritual characteristics and personality function independent of the brain. A convincing proof disregarding this view is that during many tumor surgeries, even though the body’s vital activities remain intact, after removing tissue from the brain, spiritual characteristics sometimes degrade. Another proof is the surgery performed to remove the forebrain of depressed patients (a prefrontal lobotomy). The patients vital activities were not disrupted upon surgery and their mood improved for a while. For a short amount of time, patients stopped suffering from serious neurological and psychiatric disturbances. However, when the patients were observed several years after the surgery, it was concluded that the patients lacked the functions of the forebrain and these surgeries were abandoned. The most prevalent side effects related to the removal of the forebrain were:

• Loss of the ability to solve complex social problems,
• Loss of the ability to take sequential steps in order to resolve a complex problem,
• Loss of the ability to multitask,
• Loss of determination, effort and desire to do activities,
• Loss of the ability for a community response when faced with a problem,
• Loss of ethical values and the feeling of shame,
• Loss of coherent thought even though the ability to speak and understand what is said is not lost,
• Instant emotional changes: from kindness to frustration, passion, violence and insanity,
• Inability to use artistic or naturally existing talents for the sake of a purpose.

These dysfunctions made it apparent that there was a correlation between the forebrain and spiritual characteristics.

Single neurons, not from the human brain, were inoculated in the lab and an experiment was carried out.. Studies showed that these neurons were not a means to highly intellectual capabilities, such as intelligence; whereas when neurons taken from the forebrain were inoculated and experimented on, it was found that they were a means to uniquely human capabilities like intelligence. Complex problem solving and the capacity to make discoveries were found to be correlated with the forebrain. It is not possible to explain such a fact without taking the soul into consideration. Spiritual characteristics such as sadness, happiness, joy, peace, patience, compassion, and love are all the results of complex interactions within the brain. However, it is not convincing to say that they are only results of electrical or chemical interactions within the brain.

The prefrontal area is where all thoughts coming from lower brain areas (such as sight, hearing, and feeling cortex areas, and the thalamus and hypothalamus) are gathered and processed to be enriched. Many information and memories gathered from different parts of the brain come together in the prefrontal area to be synthesized into deeper thoughts. Active memory is when different pieces of information are synthesized together and form a thought; and this thought is later acted upon. This allows to accurately surmise future events, and to plan for them.

It also allows for a rapid, appropriate response to the signals gathered by the five sensory channels. It allows for predicting the consequences of actions before performing them and for resolving problems of a complex medical, mathematical, ethical, moral, or philosophical basis. It can also postpone emotional responses for an appropriate time, measure the consequences of verbal and physical communications, use will power to measure the ethical and moral consequences of actions, and use information gathered from all channels to diagnose a problem. People who have damaged prefrontal cortexes, have serious difficulty synthesizing information and processing it to form coherent thoughts (active memory). This situation shows us that the prefrontal cortex enables consciousness and highly intellectual actions.

Another function of the prefrontal cortex is to enable focus about a specific topic. Taking this into consideration, the prefrontal cortex is semi related to attention. An existing proof for this is that people with damaged prefrontal cortexes are unable to concentrate and their focus is easily disturbed. Individuals whose prefrontal cortex has been removed or damaged can acquire a spiritual consciousness; however due to their handicap, they are unable to express their thoughts in a serial and sensible fashion for more than a minute. They can be easily distracted from the original subject. The prefrontal cortex allows an individual to accomplish a process of thought despite distractions, and allows for communication between the soul and the mind.

To sum it up, the prefrontal cortex is correlated with intellectual characteristics such as consciousness, intelligence, and self control, and also relates to how well we perform our moral values. For example, if the prefrontal cortex is unable to function, the individual does not feel shame anymore. This makes people believe shame is related only to the prefrontal cortex. However, the brain is merely a bridge between the body and the soul. Our brain is a bridge and curtain for our soul, which is the source of our spiritual characteristics. When we physically have a problem with our brain, the soul carries on its existence as before, however it is unable to express its consciousness, intellect, and will power in this material world.

Futile cycles are described as two opposing biological reactions that take place in a cell at the same time [1, 2]. As a result, futile cycles have seemingly zero net gain for the cell. Actually, because no process is 100 percent efficient, some energy is lost as heat. Thus, these cycles may even cost cells some energy. They were named “futile” cycles because scientists thought that it was wasteful for a cell to operate two exactly opposite processes simultaneously.

One such process occurs in the powerhouses of cells, the mitochondria. Mitochondria are the places where a process called “oxidative phosphorylation” takes place. Oxidative phosphorylation is an efficient way of producing ATP, the cellular energy currency [1]. In this process, high-energy electrons in nutrients are used to generate potential energy, which is in turn used to produce ATP.

Scientists who worked on mitochondrial function were flabbergasted to discover a family of proteins in the mitochondria that had a strange function. These proteins were dissipating the potential energy in the mitochondria before it could be used to produce ATP. They were named “uncoupling proteins” because they were uncoupling the potential energy buildup from ATP production [3]. Scientists couldn’t imagine what these wasteful proteins were doing in our mitochondria. Uncoupling proteins were decreasing the ATP production efficiency of mitochondria. Therefore, they named this process a futile cycle, where electrons from food were used for building up a potential, and an opposing action of uncoupling proteins were dissipating this potential before it could be stored as ATP [4]. This was similar to short-circuiting a battery by connecting two poles with a wire, and just discharging the energy—energy is lost but no work is done. The scientists took this process as a remnant of a random evolutionary process that was left unfinished—“futile,” with no function at all.

It took several years and the work of a different team of biologists to figure out the benefit of these uncoupling proteins [5]. The scientists were working on the differences between wasps and honey bees. One striking difference between these species was in their ability to adapt to colder temperatures: honey bees couldn’t fly and collect pollen when the outside temperature dropped below 10 C (50 F). They had to stay in their beehives to keep warm. On the other hand, wasps could fly around in colder temperatures. The researchers discovered that the main difference that accounted for this phenomenon was that honey bees didn’t have uncoupling proteins in their mitochondria, while wasps did. Therefore, it became apparent that the main function of uncoupling proteins was to generate heat for the body to stay warm during the times when outside temperatures fell. The uncoupling proteins, it seemed, were generating heat while dissipating the potential energy (just like the wire that heats up when you connect two poles of a battery in short circuit). Later on, it was discovered that these proteins had crucial functions in all warm-blooded animals, especially in ones that hibernate during winter.

In this case, an event that initially appeared to be meaningless or even stupid turned out to be indispensible for supporting life under certain circumstances. The fact that we cannot see wisdom behind certain events does not mean they are random or meaningless. Perhaps it is just a matter of time when, in some context, the seemingly futile thing will have a vital role. So the question remains: is there really any such thing as “random” or “futile”?

References

1. Alberts, B., J.H. Wilson, and T. Hunt. 2008. “Molecular Biology of the Cell.” 5th ed. New York: Garland Science. xxxiii, 1601, [90]

2. Available from: http://en.wikipedia.org/wiki/Futile_cycle#cite_note-0.

3. Nedergaard, J., D. Ricquier, and L.P. Kozak. 2005. “Uncoupling Proteins: Current Status and Therapeutic Prospects.” EMBO Rep. 6(10), p. 917–21.

4. Jezek, P. and J. Borecky. 1998. “Mitochondrial Uncoupling protein may participate in futile cycling of pyruvate and other monocarboxylates.” Am J Physiol, 1998. 275(2 Pt 1): p. C496–504.

5. Staples, J.F., E.L. Koen, and T.M. Laverty. 2004. “Futile Cycle Enzymes in the Flight Muscles of North American Bumblebees.” J Exp Biol. 207(Pt 5): p. 749–54.

Spending so much time in the library for a particular book further amazed me about the answer I was searching for in my research. I am trying to understand how our genome is organized and how it functions. In order to make myself clear, let me first try to explain what the genome is. I bet you will be amazed by the impressive genome organization and its flawless function, too.

The genome can be thought of as a library. Each book in the “genome library” is what we call a “gene”. Every gene is different in size and the information they contain, just like the books in the library. Like the different sections in the library, our genes are also compartmentalized into different chromosomes. We have 23 pairs of chromosomes. One pair contains the information from our father and the other one from our mother. Therefore, unlike libraries, where you may find more than one copy of a book, our genome has two copies of each gene (except the genes on the X and Y chromosomes which carry only one set of genes).

Every cell in our body carries its own library: the genome. Our genome is the smallest library in terms of physical volume, yet contains relatively the largest amount of information. In our body, which contains roughly 100 trillion cells, we carry 100 trillion of these libraries. Here comes the amazing part; each of these libraries contains 3 billion letters of information. If this information were to be printed, it would take 1000 books of 200 pages each. The information in our genome is coded by a 4 letter alphabet; Adenine (A), Guanine (G), Cytosine (C) and Tymine (T). These four letters (A,G,C,T), called deoxyribonucleic acids, are the building blocks of every DNA strand on earth. The collective amount of these letters in any organism constitutes of its genome. We, as humans, have about 3 billion of these letters in our genome, which is encapsulated in the nucleus of every cell in our body. The total length of our genome is 2 meters long. This 2 meter long stretch of DNA (3 billion letters of information) is highly compacted and packaged in the nucleus, which is only 2 micrometer in diameter, an amazing 1,000,000 fold compaction!

How is our genome, which is 2 meters long, compacted so much that it fits in a nucleus only 2 micrometer in size? In the nucleus, DNA is wrapped around a group of 8 proteins called histones. This combination of DNA and histone proteins forms a special structure called “beads on the string”. Each bead is called “nucleosome” (Figure 1).

Multiple nucleosomes are then coiled together and stacked on top of each other. This organisation further packs the DNA up into a thicker fiber called “chromatin”. This chromatin fiber further condenses by forming tight loops. The structure which we call a “chromosome” is actually the most compact form of the chromatin fiber, which is only visible under the microscope during cell division. This remarkable chromatin organization allows a 2 meter long DNA to fit into the nucleus of each cell, an object so small that 10,000 of these nuclei can fit on the tip of a needle!

This remarkable genome organization further impresses us when we think about the utilization of this genetic information by over one hundred trillions of cells in our body. These many cells in our body are not all similar to one another. Most of the cells in our body are specialized to carry out specific functions. We have more than 200 different cell types specialized for unique functions. Some cells, like B and T cells in our immune system, are dedicated to fighting against infectious agents, whereas other cells, like neurons, function by transmitting signals between our brain and muscles. Since these cells have different structures and carry out different functions, they require different sets of instructions coded by genes in the genome. There are roughly 20.000 genes in our genome. Importantly, each specialized cell in our body utilizes only a subset of these genes, not all of them, at any given time. In other words, from the library analogy, roughly two third of the books (i.e., genes) are needed for each cell to function. The remaining one third of the genes is not necessary for that particular cell type. For example, the MYOD1 gene encodes a protein required for muscle cell differentiation. Therefore, this gene is absolutely required for muscle cells. However, the same gene is not required for the B or T cells that function in our immune system. While the MYOD1 gene has to be stored in an easy access location (open chromatin) for muscle cells, immune cells do not need this gene, and therefore it is stored in the depository section of the “genome library” (closed chromatin), which is not used very often.

In line with this, each cell has to organize its genome in a special way so that the genes needed for its function should be easily accessible. This remarkable genome packaging and organization allows each cell to easily and very quickly access the required genes for transcription into the proteins. On the other hand, those genes that are not going to be used are stored in relatively inaccessible regions in the genome library. Therefore, the genome is not packaged similarly all along. Certain regions of the genome are “open” and therefore easily accessible (called euchromatin) for transcription, while other regions are kept “closed” by condensed and packed structure (called heterochromatin). Since each cell type requires different set of genes, the genome is also differentially organized between cell types. Genome organization in a muscle cell is remarkably different than genome organization in, let’s say, a skin cell.

After all these explanations, I hear you asking, “How does each cell in our body know how to organize their genome? How does, lets say, a muscle cell decides to become muscle but not a blood cell?” These are exactly the same questions that many scientists are asking nowadays. Since the completion of the Human Genome Project (HGP)1,2, which determined the entire sequence of information of our DNA, scientists have been trying to understand how this amazing alphabet is being used in each and every cell in our body. Francis Collins, one of the great scientists of our time and the current director of National Institute of Health (NIH-USA), is especially noted for his landmark discoveries of diseases associated genes, as well as his leadership in the Human Genome Project. He calls the information coded in our DNA the “Language of God” in his recent book.3 Recent technological advancements allow scientists to better study the structure and function of this language and get better clues about the organization of this genomic library.

Whether we believe that this genomic information is “the language of God” or not, we are closer than ever to understanding the codes of this amazing language. New technological advancements allow us to get better insights about the organization and utilization of this information. The more we learn about it, the more we are amazed about not only its flawless packaging but also its differential utilization in each cell. At any time and in any tissue, trillions of cells are using different sections of the genome library to get the necessary instructions decoded from “the Language of God” and continue their journey in our bodies without any conscious decision making on our part.

Ahmet Mir Fazil holds Ph.D. degree in molecular Biology. He is a research scientist in Boston.

References

1. International Human Genome Sequencing Consortium (2001). “Initial sequencing

and analysis of the human genome.” Nature 409 (6822): 860–921.

2. Venter, JC, et al. (2001). “The sequence of the human genome.” Science 291

(5507): 1304–1351.

3. Francis S. Collins. 2006. The Language of God: A Scientist Presents Evidence for Belief. Free Press.

Open heart surgery is performed after putting the patient to sleep under a general anesthetic. The chest is then opened by the surgeon, and the heart is temporarily bypassed or deactivated for the duration of surgery (although in some new techniques like beating heart surgery or minimal invasion heart surgery, the operation is possible without deactivation of the heart) During this period the functions of the heart are performed by an artificial lung mechanism called the heart-lung machine (cardiopulmonary bypass machine). Performing surgery on a working heart cases where there is no facility for beating heart surgery would be like trying to repair the engine of a car while it is in motion. This is why it is necessary to temporarily prevent the functions of the heart during the operation, which requires great care and accuracy.

Stopping the heart

During this procedure the patient is connected to the machine, thin pipes called cannulae are inserted into the main veins which lead to the heart, and thus the blood which goes to the heart is directed into the heart-lung pump, fed with oxygen, and then redirected into the body. Preventing the function of the heart is not a very difficult process. When the heart-lung machine is activated and the blood is cooled and redirected into the blood vessels, the body temperature is reduced to below 30°C, and this lowers the heart rate and assists the heart to stop functioning. The actual stopping of the heart is performed by feeding a serum containing a concentrated solution of potassium ions into the coronary artery, which feeds the heart muscle. Potassium ions are normally found in the human body but in a fixed proportion; potassium is an electrolyte which, if increased, causes a defect in the heart’s rhythm and can lead to ceasing of the heart function. Feeding the coronary artery rapidly with a rich potassium solution causes the heart to stop within a few seconds and allows the surgeon to perform the operation on a non-functioning, motionless heart.

The heart should not be stopped from functioning for a long period, even if the heart-lung pump is performing the function of the heart successfully. Under normal conditions the pump cannot perform the whole duty of the actual heart and lungs. When the body temperature is reduced, there is a reduction of functioning in many organs of the body to such an extent that they almost stop working, especially the brain. This means that every organ freezes and if the patient’s pulse were taken within this period, they would be assessed as dead.

Restarting the heart

To restart the heart following the operation a reversal of the procedure performed at the beginning of surgery is necessary; the temperature of the body is increased to 36.5–37°C again with the help of the heart-lung pump, and at the same time the amount of potassium in the blood is reduced to a normal level. This is usually executed by ensuring the normal function of the kidneys which discard the potassium from the body. This is when the function of the heart is monitored closely because there is a reversal in the process of inducing low body temperature and the excess of potassium which caused the heart to stop. In other words, the barrier which stopped the flowing river is removed; therefore, according to the laws of physics, the trapped fluid should flow again at great speed, and although following surgery the majority of hearts do begin to function again when these procedures are performed, there is unfortunately no actual guarantee. There may be certain complications or even causes which we have not yet discovered, in which case an electric shock of 10–20 joules is delivered directly to the heart muscle to encourage it to function normally. If this is unsuccessful, medication such as adrenalin, which induces the functioning of the heart, is given to the patient. If, following these repeated procedures, there is no effect, and, regardless of all the effort, the heart does not function, then everything is performed again from the beginning, including the operation. But there is always the possibility that the desired result may not be achieved. Human beings always face the prospect of death in daily life, and although there is a very slim chance of death, with such a big operation there is always the possibility.

The result

We are normally totally unaware of the rhythmic incidents, a combination of great harmony, occurring within our bodies. Even breathing, a necessity for every living creature to stay alive, is not an action which we activate and continue of our own will. Sight, hearing, hunger and senses are acts of nature over which we have little direct will or power. Nevertheless, they are all events which we can only describe as divine miracles and what a great blessing it is that none of these complex functions of our bodies have been left to us humans.

I hang between your stomach and your duodenum under it, attached to the intestinal mesenteries. I have two different identities in terms of my structure and function. I carry out two very different duties as a compound gland made up of both exocrine and endocrine tissues. So, I am granted a very special structure and chemical abilities to function well. One of my duties is related to the physiology of digestion: I break up the food passing from the stomach to the duodenum by pouring on it the four types of digestive enzymes I have been enabled to produce. These juices are carried through a tiny pipe to your duodenum. Two of them are used for breaking up proteins, one for carbohydrates, and one for fats. You don’t even realize it! As the food you take in passes from the stomach to the duodenum, my enzymes begin flowing faster. This is a very fine balance: while food is being digested, neither the enzymes should be wasted, nor should your intestinal walls be harmed. I don’t control the release of the enzymes. That duty is given to two hormones produced in your intestinal mucosa by the stimulus of the vagus nerve. When those hormones reach me by the bloodstream, my cells are stimulated and they secrete water, bicarbonate, and the digestive enzymes I mentioned and they flow into your duodenum through my duct.

My second job is the production of insulin and glucagon hormones, as the endocrinal pancreas. My cell clusters, which are also known as islets of Langerhans, have different types as separate groups, which you call alpha and beta. The insulin, which is produced by my beta cells, is used for regulating the glucose level in your blood. The duty of insulin is to stimulate your body cells to take the glucose in your blood and use it.

After you have a meal, the carbohydrates in it are broken down into glucose molecules, pass into the blood, and increase your blood sugar. For your body to function in a healthy way, the amount of glucose should be around 100mg/ml (it varies from 80–120). When the level is above the normal value, I secrete insulin. In this way, the sugar is carried to your cells and burned to produce energy, and its increase in your blood is brought back under control. Also, insulin helps you to store sugar in fat tissues and to turn them into fatty acids, and it slows the breaking down of fatty acids. Moreover, insulin helps you to make protein in your body by holding amino acids within your muscle tissues and storing glucose in your liver and turning it into glycogen.

The failure of my beta cells to secrete insulin is a serious problem; the consequence is “diabetus mellitus,” or what we commonly know as diabetes. A person with this disorder must abstain from various delicious foods and drinks. In cases where a strict diet does not solve the problem, patients may have to take insulin shots every day. Diabetes can cause many complications by damaging your nerves and blood vessels; I won’t go into types of diabetes so I don’t get sidetracked too much. I just wished to make a point: even a substance produced by a tiny cluster of cells can upset the functioning of many of your mechanisms. After having a meal, put your hand to the left of your abdomen below the stomach and remember what a blessing I am!

As for the glucagon hormone I secrete from my alpha cells, it does just the opposite of insulin and causes the sugar stored in your cells to be released into your bloodstream. When your blood sugar decreases-due to hunger, overwork, exercise, and so on-it causes the glycogen in your liver to be used in order to increase the level of your blood sugar. As adrenalin secreted by the adrenal glands helps glycogen to be broken down and to be released into the blood as glucose, they function as an integrated system. Glucagon also slows down the synthesis of glycogen, and it accelerates the break-up of proteins and fat metabolism. I think now you get it, Peter. Insulin and glycagon are parts of a biological feedback mechanism controlling one another. People discovered all these facts after years of lab research; now do you see how ridiculous it is to see me as a work of blind chance?

Like any other organ, I can also contract various diseases. The most common ones are acute or chronic inflammation, tumors, and cysts. I am easily troubled with inflammation in people with alcohol habits. Since enzyme secretions-and therefore digestive processes-are then not carried out properly, some undigested fats and fibers with proteins are excreted with the feces. A problem can arise with the intestines due to digestive deficiency. And if I completely fail to fulfill my duty owing to a chronic inflammation or tumor, then doctors take me out and you become dependent on insulin and a special liquid obtained from the pancreas.

It is sad to say that my cancer is not quickly recognized. It develops very fast and I try to keep up my duty as long as possible. Therefore, it is usually too late when diagnosed. There is nothing much modern medicine can do after it spreads. Although it is not definite yet, I suspect cigarettes play a role in my cancer.

As for diabetes, even though a promising method of treatment has been discovered, certain problems haven’t been overcome yet. The transplant of beta cells from the pancreas of someone who has just died-with as much tissue compatibility as possible-has had partial success. As with every other organ transplant, tissue rejection is a challenge. If the human genome project succeeds and the genetic code of the human body is thoroughly solved, it may be possible to cure diabetes by genetic engineering techniques. This is only at research level for now, but if scientists do their best, it is possible to find a way, since there is a treatment for every disease except for old age and death. You see Peter, as the vicegerents on earth, you humans are supposed to explore the secrets of the universe and appreciate the beauties you discover. I think I have said enough now. Thanks for listening, Peter!

Irfan Yilmaz is a professor of biology at Dokuz Eylul University, Izmir, Turkey.