Biology

Learninsta presents the core concepts of Biology with high-quality research papers and topical review articles.

Stages of Respiration – Definition, Phases, Flow Chart

1. Glycolysis-conversion of glucose into pyruvic acid in cytoplasm of cell.
2. Link reaction-conversion of pyruvic acid into acetyl coenzyme-A in mitochondrial matrix.
3. Krebs cycle-conversion of acetyl coenzyme A into carbon dioxide and water in the mitochondrial matrix.
4. Electron transport chain to tranfer electrons remove hydrogen ions and transfer electrons from the products of glycolysis, link reaction and Krebs cycle.
5. It takes place in mitochondrial inner membrane to release ATP with water molecule by terminal oxidation (Figure 14.5).

Glycolysis

(Gr: Glykos 5 Glucose, Lysis 5 Splitting) Glycolysis is a linear series of reactions in which 6-carbon glucose is split into two molecules of 3-carbon pyruvic acid. The enzymes which are required for glycolysis are present in the cytoplasm (Figure 14.6).

The reactions of glycolysis were worked out in yeast cells by three scientists Gustav Embden (German), Otto Meyerhoff (German) and J Parnas (Polish) and so it is also called as EMP pathway. It is the first and common stage for both aerobic and anaerobic respiration. It is divided into two phases.

1. Preparatory phase or endergonic phase or hexose phase (steps 1-5).
2. Pay off phase or oxidative phase or exergonic phase or triose phase (steps 6-10).

1. Preparatory Phase

Glucose enters the glycolysis from sucrose which is the end product of photosynthesis. Glucose is phosphorylated into glucose-6-phosphate by the enzyme hexokinase, and subsequent reactions are carried out by different enzymes (Figure 14.6). At the end of this phase fructose-1, 6-bisphosphate is cleaved into glyceraldehyde-3-phosphate and dihydroxy acetone phosphate by the enzyme aldolase.

These two are isomers. Dihydroxy acetone phosphate is isomerised into glyceraldehyde-3-phosphate by the enzyme triose phosphate isomerase, now two molecules of glyceraldehyde 3 phosphate enter into pay off phase. During preparatory phase two ATP molecules are consumed in step-1 and step-3 (Figure 14.6).

Pay Off Phase

Two molecules of glyceraldehyde-3-phosphate oxidatively phosphorylated into two molecules of 1,3 – bisphospho glycerate. During this reaction 2NAD⁺ is reduced to 2NADH⁺H⁺ by glyceraldehyde-3-phosphate dehydrogenase at step 6. Further reactions are carried out by different enzymes and at the end two molecules of pyruvate are produced.

In this phase, 2ATPs are produced at step 7 and 2 ATPs at step10 (Figure 14.6). Direct transfer of phosphate moiety from substrate molecule to ADP and is converted into ATP is called substrate phosphorylation or direct phosphorylation or trans phosphorylation. During the reaction at step 9, 2 phospho glycerate dehydrated into Phospho enol pyruvate. A water molecule is removed by the enzyme enolase. As a result, enol group is formed within the molecule. This process is called Enolation.

3. Energy Budget

In the pay off phase totally 4ATP and 2NADH + H⁺ molecules are produced. Since 2ATP molecules are already consumed in the preparatory phase, the net products in glycolysis are 2ATPs and 2NADH + H⁺.

The Overall Net Reaction of Glycolysis

C₆H₁₂O₆ + 2ADP + 2Pi + 2NAD⁺
↓
2x CH₃COCOOH + 2ATP + 2NADH + 2H⁺

Pyruvate Oxidation (Link reaction)

Two molecules of pyruvate formed by glycolysis in the cytosol enters into the mitochondrial matrix. In aerobic respiration this pyruvate with coenzyme A is oxidatively decarboxylated into acetyl CoA by pyruvate dehydrogenase complex. This reaction is irreversible and produces two molecules of NADH + H⁺ and 2CO₂. It is also called transition reaction or Link reaction. The reaction of pyruvate oxidation is Pyruvate.

Krebs Cycle or Citric Acid Cycle or TCA Cycle:

Two molecules of acetyl CoA formed from link reaction now enter into Krebs cycle. It is named after its discoverer, German Biochemist Sir Hans Adolf Krebs (1937). The enzymes necessary for TCA cycle are found in mitochondrial matrix except succinate dehydrogenase enzyme which is found in mitochondrial inner membrane (Figure 14.7).

TCA cycle starts with condensation of acetyl CoA with oxaloacetate in the presence of water to yield citrate or citric acid. Therefore, it is also known as Citric Acid Cycle (CAC) or Tri Carboxylic Acid (TCA) cycle. It is followed by the action of different enzymes in cyclic manner.

During the conversion of succinyl CoA to succinate by the enzyme succinyl CoA synthetase or succinate thiokinase, a molecule of ATP synthesis from substrate without entering the electron transport chain is called substrate level phosphorylation.

In animals a molecule of GTP is synthesized from GDP + Pi. In a coupled reaction GTP is converted to GDP with simultaneous synthesis of ATP from ADP + Pi. In three steps (4, 6, 10) in this cycle NAD⁺ is reduced to NADH + H⁺ and at step 8 (Figure 14.8) where FAD is reduced to FADH₂.

The summary of link reaction and Krebs cycle in Mitochondria is

Two molecules of pyruvic acid formed at the end of glycolysis enter into the mitochondrial matrix. Therefore, Krebs cycle is repeated twice for every glucose molecule where two molecules of pyruvic acid produces six molecules of CO₂, eight molecules of NADH + H⁺, two molecules of FADH₂ and two molecules of ATP.

1. Significance of Krebs Cycle:

1. TCA cycle is to provide energy in the form of ATP for metabolism in plants.
2. It provides carbon skeleton or raw material for various anabolic processes.
3. Many intermediates of TCA cycle are further metabolised to produce amino acids, proteins and nucleic acids.
4. Succinyl CoA is raw material for formation of chlorophylls, cytochrome, phytochrome and other pyrrole substances.
5. α-ketoglutarate and oxaloacetate undergo reductive amination and produce amino acids.
6. It acts as metabolic sink which plays a central role in intermediary metabolism.

2. Amphibolic Nature

Krebs cycle is primarily a catabolic pathway, but it provides precursors for various biosynthetic pathways there by an anabolic pathway too. Hence, it is called amphibolic pathway. It serves as a pathway for oxidation of carbohydrates, fats and proteins.

When fats are respiratory substrate they are first broken down into glycerol and fatty acid. Glycerol is converted into DHAP and acetyl CoA. This acetyl CoA enter into the Krebs cycle.

When proteins are the respiratory substrate they are degraded into amino acids by proteases. The amino acids after deamination enter into the Krebs cycle through pyruvic acid or acetyl CoA and it depends upon the structure.

So respiratory intermediates form the link between synthesis as well as breakdown. The citric acid cycle is the final common pathway for oxidation of fuel molecules like amino acids, fatty acids and carbohydrates. Therefore, respiratory pathway is an amphibolic pathway (Figure 14.9).

Electron Transport Chain (ETC) (Terminal Oxidation)

During glycolysis, link reaction and Krebs cycle the respiratory substrates are oxidised at several steps and as a result many reduced coenzymes NADH + H⁺ and FADH₂ are produced. These reduced coenzymes are transported to inner membrane of mitochondria and are converted back to their oxidised forms produce electrons and protons.

In mitochondria, the inner membrane is folded in the form of finger projections towards the matrix called cristae. In cristae many oxysomes (F₁ particles) are present which have electron transport carriers. According to Peter Mitchell’s Chemiosmotic theory this electron transport is coupled to ATP synthesis. Electron and hydrogen(proton) transport takes place across four multiprotein complexes(I-IV). They are:-

1. Complex-I (NADH Dehydrogenase):

It contains a flavoprotein(FMN) and associated with non-heme iron Sulphur protein (Fe-S). This complex is responsible for passing electrons and protons from mitochondrial NADH (Internal) to Ubiquinone (UQ).

NADH + H⁺ + UQ ⇄ NAD⁺ + UQH₂

In plants, an additional NADH dehydrogenase (External) complex is present on the outer surface of inner membrane of mitochondria which can oxidise cytosolic NADH + H⁺. Because mitochondrial inner membrane cannot allow NADH molecules directly into the matrix. Ubiquinone (UQ) or Coenzyme Quinone (CoQ) is a small, lipid soluble electron, proton carrier located within the inner membrane of mitochondria.

2. Complex-II (Succinic Dehydrogenase)

It contains FAD flavoprotein is associated with non-heme iron Sulphur (Fe-S) protein. This complex receives electrons and protons from succinate in Krebs cycle and is converted into fumarate and passes to ubiquinone. Succinate + UQ → Fumarate + UQH₂

3. Complex-III (Cytochrome bc₁ Complex)

This complex oxidises reduced ubiquinone (ubiquinol) and transfers the electrons through Cytochrome bc₁ Complex (Iron Sulphur center bc₁ complex) to cytochrome.

Cytochrome c is a small protein attached to the outer surface of inner membrane and act as a mobile carrier to transfer electrons between complex III to complex IV.

4. Complex IV (Cytochome Oxidase)

This complex contains two copper centers (A and B) and cytochromes a and a₃. Complex IV is the terminal oxidase and brings about the reduction of 1/2 O₂ to H₂O. Two protons are needed to form a molecule of H₂O (terminal oxidation).

The transfer of electrons from reduced coenzyme NADH to oxygen via complexes I to IV is coupled to the synthesis of ATP from ADP and inorganic phosphate (Pi) which is called Oxidative phosphorylation. The F₀F₁. F₁ converts ADP and Pi to ATP and is attached to the matrix side of the inner membrane. F₀ is present in inner membrane and acts as a channel through which protons come into matrix.

Oxidation of one molecule of NADH + H⁺ gives rise to 3 molecules of ATP and oxidation of one molecule FADH₂ produces 2 molecules of ATP within a mitochondrion. But cytoplasmic NADH + H⁺ yields only two ATPs through external NADH dehydrogenase.

Therefore, two reduced coenzyme (NADH + H⁺) molecules from glycolysis being extra mitochondrial will yield 2 × 2 = 4 ATP molecules instead of 6 ATPs (Figure 14.10). The Mechanism of mitochondrial ATP synthesis is based on Chemiosmotic hypothesis. According to this theory electron carriers present in the inner mitochondrial membrane allow for the transfer of protons (H⁺). For the production of single ATP, 3 protons (H⁺) are needed.

The terminal oxidation of external NADH bypasses the first phosphorylation site and hence only two ATP molecules are produced per external NADH oxidised through mitochondrial electron transport chain. However, in those animal tissues in which malate shuttle mechanism is present, the oxidation of external NADH will yield almost 3 ATP molecules.

Complete oxidation of a glucose molecule in aerobic respiration results in the net gain of 36 ATP molecules in plants as shown in table 14.2. Since huge amount of energy is generated in mitochondria in the form of ATP molecules they are called ‘power house of the cell’. In the case of aerobic prokaryotes due to lack of mitochondria each molecule of glucose produces 38 ATP molecules.

Stages	CO2	ATP	Reduced NAD+	Reduced FAD	Total ATP Production
Glycolysis	0	2	2(2 × 2 = 4)	0	6
Link reaction	2	0	(2 × 3) = 6	0	6
Krebs cycle	4	2	(6 × 3 = 18)	2 (2 × 2 = 4)	24
Total	6	4 ATPs	28 ATPs	4 ATPs	36 ATPs

Recent View

When the cost of transport of ATPs from matrix into the cytosol is considered, the number will be 2.5 ATPs for each NADH + H⁺ and 1.5 ATPs for each FADH₂ oxidised during electron transport system. Therefore, in plant cells net yield of 30 ATP molecules for complete aerobic oxidation of one molecule of glucose. But in those animal cells (showing malate shuttle mechanism) net yield will be 32 ATP molecules.

Learninsta presents the core concepts of Biology with high-quality research papers and topical review articles.

Types of Respiration

Respiration is classified into two types as aerobic and anaerobic respiration (Figure 14.4)

Aerobic Respiration

Respiration occurring in the presence of oxygen is called aerobic respiration. During aerobic respiration, food materials like carbohydrates, fats and proteins are completely oxidised into CO₂, H₂O and energy is released. Aerobic respiration is a very complex process and is completed in four major steps:

1. Glycolysis
2. Pyruvate oxidation (Link reaction)
3. Krebs cycle (TCA cycle)
4. Electron Transport Chain (Terminal oxidation).

Anaerobic Respiration

In the absence of molecular oxygen glucose is incompletely degraded into either ethyl alcohol or lactic acid (Table 14.1). It includes two steps:

1. Glycolysis
2. Fermentation

Aerobic Respiration	Anaeorbic Respiration
1. It occurs in all living cells of higher organisms	1. It occurs yeast and some bacteria
2. It requires oxygen for breaking the respiratory substrate	2. Oxygen is not required for breaking the respiratory substrate
3. The end products are CO2 and H2O	3. The end products are alcohol, and CO2 (Or) lactic acid
4. Oxidation of one molecule of glucose produces 36 ATP molecules	4. Only 2 ATP molecules are produced
5. It consists of four stages-glycolysis, link reaction, TCA cycle and electron transport chain	5. It consists of two stages-glycolysis and fermentation
6. It occurs in cytoplasm and mitochondria	6. It occurs only in cytoplasm

An oxidation-reduction (redox) reaction is a type of chemical reaction that involves a transfer of electrons between two species. An oxidation-reduction reaction is any chemical reaction in which the oxidation number of a molecule, atom, or ion changes by gaining or losing an electron.

Because any loss of electrons by one substance must be accompanied by a gain in electrons by something else, oxidation and reduction always occur together. As such, electron-transfer reactions are also called oxidation-reduction reactions, or simply redox reactions.

Remember that although redox reactions are common and plentiful, not all chemical reactions are redox reactions. All redox reactions involve complete or partial transfer of electrons from one atom to another. Both reactions above are examples of oxidation-reduction reactions.

Oxidation-reduction reaction, also called redox reaction, any chemical reaction in which the oxidation number of a participating chemical species changes.

Simple Redox Reactions

• Write the oxidation and reduction half-reactions for the species that is reduced or oxidized.
• Multiply the half-reactions by the appropriate number so that they have equal numbers of electrons.
• Add the two equations to cancel out the electrons. The equation should be balanced.

What is the only pattern for redox reactions? Describe how redox reactions always occur. Redox reactions always occur together; if one reactant in a chemical reaction is oxidized, then another reactant must be reduced.

Double-replacement reactions such as the one below are not redox reactions because ions are simply recombined without any transfer of electrons. Note that the oxidation numbers for each element remain unchanged in the reaction.

The batteries which are used for generating DC current use redox reaction to produce electrical energy. Batteries also called as electrochemical cells used in our day-to-day life are also based on redox reactions. For example, storage cells which are used in vehicles to supply all the electrical needs of the vehicles. These reactions cannot be reversed once they occur, because the product escapes the surface immediately.

Oxidation reactions may be exothermic or endothermic. Eg. All combustion reactions are exothermic and ionisation reaction giving positive ions are endothermic.

The key difference between redox and nonredox reactions is that in redox reactions, the oxidation state of some chemical elements changes from one state to another state whereas, in nonredox reactions, the oxidation states of chemical elements do not change.

Learninsta presents the core concepts of Biology with high-quality research papers and topical review articles.

Redox Reactions

NAD⁺ + 2e^– + 2H⁺ → NADH + H⁺
FAD + 2e^– + 2H⁺ → FADH₂

When NAD⁺ (Nicotinamide Adenine Dinucleotide-oxidised form) and FAD (Flavin Adenine Dinucleotide) pick up electrons and one or two hydrogen ions (protons), they get reduced to NADH + H⁺ and FADH₂ respectively.

When they drop electrons and hydrogen off they go back to their original form. The reaction in which NAD⁺ and FAD gain (reduction) or lose (oxidation) electrons are calledredox reaction (Oxidation reduction reaction). These reactions are important in cellular respiration.

An oxidation-reduction (redox) reaction is a type of chemical reaction that involves a transfer of electrons between two species. An oxidation-reduction reaction is any chemical reaction in which the oxidation number of a molecule, atom, or ion changes by gaining or losing an electron.

The reaction in which one substance gets oxidised and other gets reduced is known as redox reaction. Example: ZnO + C → Zn + CO. Here, C is oxidised to CO because oxygen is being added and ZnO is reduced to Zn because oxygen is being removed. Therefore, it is a redox reaction.

Keep this in mind as we look at the five main types of redox reactions: combination, decomposition, displacement, combustion, and disproportion. Combination. Combination reactions “combine” elements to form a chemical compound.

• Decomposition
• Displacement
• Combustion
• Disproportionation

Because any loss of electrons by one substance must be accompanied by a gain in electrons by something else, oxidation and reduction always occur together. As such, electron-transfer reactions are also called oxidation-reduction reactions, or simply redox reactions.

Remember that although redox reactions are common and plentiful, not all chemical reactions are redox reactions. All redox reactions involve complete or partial transfer of electrons from one atom to another. Both reactions above are examples of oxidation-reduction reactions.

Oxidation-reduction reaction, also called redox reaction, any chemical reaction in which the oxidation number of a participating chemical species changes.

Write the oxidation and reduction half-reactions for the species that is reduced or oxidized. Multiply the half-reactions by the appropriate number so that they have equal numbers of electrons. Add the two equations to cancel out the electrons. The equation should be balanced.

Double-replacement reactions such as the one below are not redox reactions because ions are simply recombined without any transfer of electrons. Note that the oxidation numbers for each element remain unchanged in the reaction.

Learninsta presents the core concepts of Biology with high-quality research papers and topical review articles.

Structure of ATP

Respiration is responsible for generation of ATP. The discovery of ATP was made by Karl Lohman (1929). ATP is a nucleotide consisting of a base-adenine, a pentose sugar-ribose and three phosphate groups. Out of three phosphate groups the last two are attached by high energy rich bonds (Figure 14.3). On hydrolysis, it releases energy (7.3 K cal or 30.6 KJ/ATP) and it is found in all living cells and hence it is called universal energy currency of the cell.

ATP is an instant source of energy within the cell. The energy contained in ATP is used in synthesis carbohydrates, proteins and lipids. The energy transformation concept was established by Lipman (1941).

ATP is a nucleotide that consists of three main structures: the nitrogenous base, adenine; the sugar, ribose; and a chain of three phosphate groups bound to ribose. The phosphate tail of ATP is the actual power source which the cell taps.

The structure of ATP is a nucleoside triphosphate, consisting of a nitrogenous base (adenine), a ribose sugar, and three serially bonded phosphate groups. ATP is commonly referred to as the “energy currency” of the cell, as it provides readily releasable energy in the bond between the second and third phosphate groups.

It allows the cell to store energy briefly and transport it within the cell to support endergonic chemical reactions. The structure of ATP is that of an RNA nucleotide with three phosphates attached. As ATP is used for energy, a phosphate group or two are detached, and either ADP or AMP is produced.

ATP and ADP are two types of nucleotides mainly involved in the transfer of energy between biochemical reactions in the cell. Both ATP and ADP are composed of a ribose sugar, adenosine, and phosphate groups. ATP molecule is composed of three phosphate molecules while ADP is composed of two phosphate molecules.

ATP is composed of ribose, a five-carbon sugar, three phosphate groups, and adenine, a nitrogen-containing compound (also known as a nitrogenous base).

From the perspective of biochemistry, ATP is classified as a nucleoside triphosphate, which indicates that it consists of three components: a nitrogenous base (adenine), the sugar ribose, and the triphosphate.

Give three examples of how ATP is used in organisms. ATP is used to build large molecules such as proteins, to temporarily store energy in the form of fat, and to allow for all types of cellular transport.

Its Structure. The ATP molecule is composed of three components. These phosphates are the key to the activity of ATP. ATP consists of a base, in this case adenine (red), a ribose (magenta) and a phosphate chain (blue).

All living things, plants and animals, require a continual supply of energy in order to function. The energy is used for all the processes which keep the organism alive. This special carrier of energy is the molecule adenosine triphosphate, or ATP.

The process of phosphorylating ADP to form ATP and removing a phosphate from ATP to form ADP in order to store and release energy respectively is known as the ATP cycle. The energy within an ATP molecule is stored in the phosphate bonds of the ATP. When a cell needs energy, a phosphate is removed from ATP.

Any metabolic process that requires oxygen to occur is referred to as aerobic. Humans, most other multicellular organisms, and some microorganisms require oxygen for the efficient capture of the chemical energy from food and its transformation into the cellular energy form known as ATP.

Energy is stored in the bonds joining the phosphate groups (yellow). The covalent bond holding the third phosphate group carries about 7, 300 calories of energy.

Adenosine triphosphate (ATP), energy-carrying molecule found in the cells of all living things. ATP captures chemical energy obtained from the breakdown of food molecules and releases it to fuel other cellular processes.

For example, both breathing and maintaining your heartbeat require ATP. In addition, ATP helps to synthesize fats, nerve impulses, as well as move certain molecules into or out of cells. Some organisms, such as bioluminescent jellyfish and fireflies, even use ATP to produce light.

All organisms need energy. Life depends on the transfer of energy. ATP is an important source of energy for biological processes. In photosynthesis energy is transferred to ATP in the light-dependent stage and the ATP is utilised during synthesis in the light-independent stage.

ATP is required for various biological processes in animals including; Active Transport, Secretion, Endocytosis, Synthesis and Replication of DNA and Movement.

The Adenosine triphosphate (ATP) molecule is the nucleotide known in biochemistry as the “molecular currency” of intracellular energy transfer; that is, ATP is able to store and transport chemical energy within cells. ATP also plays an important role in the synthesis of nucleic acids.

Beginning with energy sources obtained from their environment in the form of sunlight and organic food molecules, eukaryotic cells make energy-rich molecules like ATP and NADH via energy pathways including photosynthesis, glycolysis, the citric acid cycle, and oxidative phosphorylation.

The energy released by ATP is released when a phosphate group is removed from the molecule. ATP has three different phosphate groups, but the bond holding the third phosphate group is unstable and is very easily broken. Where does ADP come from? When phosphate is removed, energy is released and ATP becomes ADP.

Learninsta presents the core concepts of Biology with high-quality research papers and topical review articles.

Gaseous Exchange

The term respiration was coined by Pepys (1966). Respiration is a biological process in which oxidation of various food substances like carbohydrates, proteins and fats take place and as a result of this, energy is produced where O₂ is taken in and CO₂ is liberated. The organic substances which are oxidised during respiration are called respiratory substrates.

Among these, glucose is the commonest respiratory substrate. Breaking of C-C bonds of complex organic compounds through oxidation within the cells leads to energy release. The energy released during respiration is stored in the form of ATP (Adenosine Tri Phosphate) as well as liberated heat. Respiration occurs in all the living cells of organisms. The overall process of respiration corresponds to a reversal of photosynthesis. C₆H₁₂O₆ + 6O₂ → 6CO₂ + 6H₂O + Energy (686 K cal or 2868 KJ)
(1K cal = 4.184 KJ)

Depending upon the nature of respiratory substrate, Blackman divided respiration into,

1. Floating Respiration
2. Protoplasmic Respiration

When carbohydrate or fat or organic acid serves as respiratory substrate and it is called floating respiration. It is a common mode of respiration and does not produce any toxic product. Whereas respiration utilizing protein as a respiratory substrate, it is called protoplasmic respiration. Protoplasmic respiration is rare and it depletes structural and functional proteins of protoplasm and liberates toxic ammonia.

Compensation Point

At dawn and dusk the intensity of light is low. The point at which CO₂ released in respiration is exactly compensated by CO₂ fixed in photosynthesis that means no net gaseous exchange takes place, it is called compensation point. At this moment, the amount of oxygen released from photosynthesis is equal to the amount of oxygen utilized in respiration.

The two common factors associated with compensation point are CO₂ and light (Figure 14.2). Based on this there are two types of compensation point. They are CO₂ compensation point and light compensation point. C₃ plants have compensation points ranging from 40-60 ppm (parts per million) CO₂ while those of C₄ plants ranges from 1-5 ppm CO₂.