Glycogen window - the essay on glycogen

Glycogen is the molecule built up from small rings of glucose (see the picture). It's structure is highly branched, which left a lot of space inbetween, and this space needs to be filled up with water. Glycogen reserves are located in the liver, holding 25% of it and the resting 75% is in the muscles.

 

Total amount of glycogen, which the body can produce and store is around 500g in average (meaning untrained) person. With the increase of muscle mass in bodybuilders or athletes, this reserve can add up to 1100g. To imagine this, take for example 1 kg loaf of white bread. That would be something over 500g of complex carbohydrates, which would be the exact amount of glycogen created from eating that whole loaf.

 

Supposing you eat that loaf on 3-4 times during the whole day. Your body needed to cover the energy for that day, and the night that follows. So when you wake up in the mornig, out of those 500g, you can have something less then half left. Plus, if you add up some exercise during the day, the demand of your body for carbohydrates will be even bigger. So here's where the phrase glycogen window start to pick up a proper meaning.

 

Glycogen window metaphorically means eating a lots of carbs and still not having enough of them for the body to process. It's like you would throw them out of window, literally. They disappear somewhere in your stomach, and get soaked into your muscles. That, of course, under the condition that you trained to stimulate growth, and provided sufficient rest for recuperation and restoring all used up nutrients.

 

Muscle growth is not facilitated only by storing extra glycogen. As mentioned earlier, additional mass contain a lots of water, as it's estimated to count 2-3g of water as an addition to every gram of glycogen itself. Plus, after training, muscles stock up on extra fats, and extra creatine phosphate to cover the energy. All together looks as pure muscle on the outside, because all those substances are inside of muscle, or around muscle fibres.

 

Otherwise, after reaching the adulthood, the number of muscle fibres stays the same for the rest of the life for everybody. Muscles are getting bigger only by storing the extra energy. And the volume can be added right into the muscle cells or fibres, or around them in so-called sarcoplasm, as an extra storage.

 

 This flow diagram shows the pathways from glucose to glycogen and back. The whole process take place in the liver cells. Glucose from blood enter liver cells and gets phosphorylated twice before start stacking them into branches of glycogen. The process of creating glycogen out of glucose is called glycogenesis, and the opposite process of breaking it down back to glucose is called glycogenolysis.

Basics of human metabolism

I found quite good flow diagram in the book Principles of anatomy and physiology, 7-th edition. It covers the  basics of metabolism, mainly the view of certain key molecules involved in it. There could be dozens of similar ones, which would involve different molecules on different pathways, because in the essence, the flow diagram is about the depicting one or more pathways of certain molecules in the body.

The metabolic pathway is defined as a series of chemical reactions that take place somewhere in the body. It can be cyclical or straightforward, and it can be executable in one direction or in both directions. The total sum of all metabolic pathways in the body is called metabolic network. 

So with the pathways, they have their starts and ends, and maybe even some milestones and/or dimension changes along the way. Good flow diagram brings all this information in simple, graphical way of covering the knowledge about human body, and systems involved within it.

This diagram focuses on chemical pathways of food that breaks down to proteins, carbohydrates and fats. Their further broke-down equivalents are amino acids, glucose and triglycerides respectively. But mainly it focuses on three key molecules, which serves as intermediates in human metabolism, and those are Acetyl co-enzyme A, Pyruvic acid, and Glucose 6-phosphate.

The last one is the ring of glucose with addition of phosphate group on sixth carbon in the chain. This altered glucose molecule, also called phosphorylated glucose, can be then used for energy into Krebs cycle, energy for DNA production, or to convert it to Pyruvic acid, the second intermediate molecule.

This one, in turn, can be used for production of alanine amino acid, or by aerobic and anaerobic reactions, to energy (ATP) with lactic acid, or to convert it to another intermediate molecule - Acetyl co-enzyme A. And this molecule can enter Krebs cycle, or to be converted to ketone bodies, cholesterol, or fatty acids. I hope it's all clear from the picture.

Each component or even word in this diagram could be enough to write about for the separate post. In whole, this is the representation of human metabolism, or at least one possible side from which it can be viewed. Plus the metabolism itself could be topic for whole books, and it is. It can be divided by particular substances into fat metabolism, protein metabolism, or carbohydrate metabolism. Or simply the metabolism of any other substance with its own characteristic pathway and chemical changes along the way.

PROCESSES

Some parts of diagram, or words, describe a process, like for example glycolysis, aerobic reactions, or Krebs cycle. So in this case, glycolysis would mean breaking down of glucose rings down to the Pyruvic acid. Aerobic reactions would be those that require oxygen for successful execution, and anaerobic reaction are on the other hand those that don't, and can work without the oxygen.

Krebs cycle represent many different reactions involving many different substances. But just to give you a hint, there is 9 steps or chemical reactions in cyclic manner, which starts and ends with the same substance - Acetyl co-enzyme A. Those then involve 9 different enzymes, 9 substrates and end products for each step. Again, each of these processes could be picked up and fill the text for the whole chapter.

So the topic is complex, and thank God there are such a things as simplifiers of it in the form of flow diagrams. The way I see it, the understanding of processes within our bodies is priceless and irreplaceable. Moreover, it cost nothing these days as there are tons of websites and library books dedicated to bringing the light on the topic. So you can watch, read, think, learn, understand and I'll see you next time around.

ATP - cell's rechargeable battery

ATP, or adenosine triphosphate, could be put in an analogy of a mini rechargeable battery that cells are using to feed the energy for many different processes within the body. It contains three basic parts.  The adenine molecule, sugar molecule (ribose), and three phosphate groups - which are really one phosphorus atom surrounded by four oxygen atoms.

The energy we talk about here is in the form of high-energy bond between those phosphate groups. When they separate, the energy is released, and then used. To put back on that last phosphate group, and therefore recharging it, it requires the energy which the body needs to get from the food we eat. This principle is explained on this picture.

 

When you take away that last phosphate group, you create the molecule called ADP - adenosine diphosphate (only 2 phosphate groups). That would be the representation of empty battery in this analogy. Rotating those two chemical reactions, then provides the means of an empty and full battery, which are moving from the place of using up to the place of recharging it. And back again and again cyclically.

 

For example, one molecule of glucose can bring up the production of as much as 38 ATPs, provided there is an oxygen present in the process. This is called an aerobic respiration. In the absence of oxygen, however, only two ATPs can be made - the process called anaerobic respiration. For more detailed view of how and where ATPs are made in the body, this flow diagram does a great job.

 

Here you can see that some ATPs are made in mitochondrion, some in the cytosol, and some in the gut - where happens the basic breaking down of food from the meals we eat. In the gut, the proteins, complex carbohydrates, and lipids are digested into the final products, which are in form of amino acids, glucose, fatty acids, and glycerol respectively.

 

First round of freshly made ATPs is happening in the cytosol, where the glucose and the glycerol are used for creating it. Cytosol is semi-fluid matrix inside of the cells, in which all the organelles are suspended. Mitochondrion is a special organelle for making ATPs and many other functions. There in the middle, there is a cyclical sequence of chemical reactions called TCA, or Krebs cycle (or citric acid cycle). This represents the biggest system for ATP production in the body.

 

Introduction

Hello everyone who is into any information about the human body. Be it a biochemistry, human biology, or physiology, flow diagrams are here to interpret some very complex information flow within our bodies in the simplest possible terms. As the saying goes, seeing once is better than hearing a hundred times, I found flow diagrams very useful tools for remembering things I want to remember, and understand the thing I want to understand.

 

Because human body is so complex and delicate at the same time, informations about it could be seen as layered into many dimensions. So many flow diagrams are here trying to reflect as many of those dimensions working together, and plus present the picture that shows links between them. For example, some flow diagrams are purely about endocrine system (or hormones), some purely about nervous system (or nerves). But some are about interconnected cooperation of those systems, and that's where it starts to be interesting.

 

Seeing a bigger picture is very important, as it gives a many ideas about connections between different parts of body. So here in this blog, I'll try to collect and comment many of those flow diagrams I found across various literature and internet. This blog is the result of my dedication to pursuing the understanding of many complex processes that are happening inside us. I only hope that you will find useful my explanations along with those diagrams. I'll try go as simple as possible, as the basics are usually most important, so every new or seemingly complicated term will be explained in simple laymen terms.

So how would you translate for your self the human body flow diagram mania? It doesn't have to be necessarily a set of flow diagrams about human body, like you found plenty in biochemistry books. But rather see it as a collection of diagrams concerning human body, which represents flow of molecules, substances, time, energy, information (you name it) in the human body. As I said, the bigger picture must be seen, and that's my motto, so here is the flow diagram to illustrate my point.

 



 This flow diagram basically represents the biggest picture possible. The ultimate structure of reality or the existence, mainly on the planet earth, but possibly not only here. Technically, all is composed with very small parts called atoms, even if those has its component too - protons, neutrons, and electrons. Either two or more atoms put together create so-called inorganic molecules, or commonly called inorganic compounds.

 

By the definition, those are very small, with very simple structure, and not containing the carbon atom. The only two exceptions are carbon dioxide, and bicarbonate ion, which contain carbon, but are still classified as inorganic - mainly due to simple structure. Other examples are water, salts, bases, acids, and separate ions called electrolytes. In the body, there's about 55-60% water, and 1-2% of all other inorganic molecules.

 

Once a lots of those are put together, the organic molecule is created. Those are big, complex, and contain carbon, or a lots of carbon atoms. The resting 40% of the body is built with those organic molecules. Types of those are carbohydrates, lipids, proteins, nucleic acids (building blocks of DNA), and ATP - the energy molecule of the body.

 

So once those already big and complex organic compounds (or molecules) start to react with each other, even bigger molecules are created. If big enough to start fulfilling some particular function, they become an organelles - like mitochondria, nucleus, ribosome, lysosome, plasma membranes, centrosomes, etc, etc. Those are the functional parts of the cells, the building units of every living organism.

 

On cellular level there is about 200 different types of cells in the body. Those close to each other, and with similar (or the same) function group together and make a functional unit called the tissue. Different tissues which are working on the same basic function create an organ, and different organs working on the same basic function create a system.

 

Altogether 12 systems in the body make the whole organism, in our case, the human body. Two basic types of body (male and female) can create a so-called breeding pair, and bring about another organism into the existence. This way populations are created leading to represent certain species, differenciating themselves from many other species on the planet. So that would be the flow diagram above put into the words.

 

Levels of structural organization

 

Still there is a number of dimensions within an organism, or human body, which I'd like to list nicely from the smallest to the biggest:

 

1. chemical level - atoms and molecules (e.g. water, oxygen, protein, ...)

2. cellular level - different types of cells (nerve, sperm, muscle, goblet, ...)

3. tissue level - different types of tissues (adipose, bone, connective, ...)

4. organ level - different types of organs (heart, brain, kidney, spleen, ...)

5. system level - 12 different systems (skeletal, digestive, urinary, ...)

6. organismal level - whole human body, or some other organism