MOCK 1 Flashcards
Energy in living organisms needed for:
Anabolic reactions:
Protein synthesis / DNA replication / glycogenesis / polymerisation
Cellular work:
Active transport / movement of chromosomes / sliding filaments /
movement of vesicles
Movement
Maintenance of body temperature in endotherms
Glucose is stable due to
its activation energy – lowered by enzymes and raising the energy
level of glucose by phosphorylation
Features of ATP that make it suitable as the universal energy currency:
Loss of phosphate / hydrolysis, leads to energy release
Small packets of energy
Small / water-soluble, so can move around cell
Immediate energy donor
Acts as link between energy-yielding and energy-requiring reactions
High turnover
Excess energy during transfer and reactions are converted into
thermal energy
glycolysis happens in
cytoplasm
Glycolysis
Glucose phosphorylated by ATP
Raises energy level / overcomes activation energy to form fructose bisphosphate
Lysis / splitting of glucose / hexose
Breaks down to two TP (triose phosphate)
6C (hexose bisphosphate) into 2 3C (triose phosphate) which is then
dehydrogenated; hydrogen transferred to NAD
2 reduced NAD formed from each TP
4 ATP produced; final net gain of 2 ATP
Pyruvate produced
link reaction happens in
mitochondrial matrix:
link reaction
Pyruvate passes by active transport from the cytoplasm through the outer and
inner membranes of a mitochondrion
Undergoes decarboxylation, dehydrogenation (hydrogen transferred to NAD) and
combined with coenzyme A (CoA) to give acetyl coenzyme A
role of CoA in link reaction
Combines with acetyl group in the link reaction
Delivers acetyl group to the Krebs cycle
Acetyl group combines with oxaloacetate
krebs cycle happens in
mitochondrial matrix
krebs cycle
Reactions are catalysed by enzymes
Acetyl CoA combines with a four-carbon compound (oxaloacetate) to form a six
carbon compound (citrate)
Citrate is decarboxylated and dehydrogenated – through intermediate compounds – to yield CO2 (waste gas) and hydrogens are accepted by hydrogen carriers (NAD
and FAD) to form reduced NAD and reduced FAD
Oxaloacetate is regenerated to combine with another acetyl CoA
Two CO2 are produced
One FAD and three NAD molecules are reduced
One ATP molecule is generated (substrate-level phosphorylation)
oxidative phosphorylation happens in
inner mitochondrial membrane
Oxidative phosphorylation
Reduced NAD / FAD are passed to the electron transport chain (ETC) on the inner
membrane of the mitochondria (cristae)
Hydrogen released from reduced NAD / FAD and splits into electron and proton
Electrons are passed along the electron carriers on the ETC
Energy released from the electrons, pumps protons into the intermembrane space
Proton gradient is set up
Protons diffuse back through the membrane – through ATP synthase – down the
potential gradient
Oxygen acts as the final electron acceptor; acts as proton acceptor to form water;
allows ETC to continue and ATP to be produced
NAD
Comparison between the structures of ATP and NAD:
Both have ribose sugars
ATP has 1 ribose, while NAD has 2
Both have adenine base
NAD has nicotinamide base
ATP has three phosphates
Function of NAD in the cytoplasm of a cell:
Acts as a hydrogen carrier
Acts as a coenzyme / enables dehydrogenases to work
Used in glycolysis / anaerobic respirations
Anaerobic respiration:
Alcoholic fermentation (conversion of glucose to ethanol):
Lactic fermentation (conversion of glucose to lactate):
Alcoholic fermentation (conversion of glucose to ethanol):
In various microorganisms (e.g. yeast) and in some plant tissues
The hydrogen from reduced NAD is passed to ethanol (CH3CHO); releasing the NAD
and allows glycolysis to continue
Pyruvate is decarboxylated into ethanal, which gets reduced to ethanol (C2H5OH) by
the enzyme ethanol dehydrogenase
Irreversible reaction
NAD regenerated, hence glycolysis can continue
Lactic fermentation (conversion of glucose to lactate):
In mammalian muscles when deprived of oxygen
Pyruvate and reduced NAD formed by glycolysis
Pyruvate is decarboxylated by pyruvate decarboxylase into ethanal – which acts as
a hydrogen acceptor from reduced NAD
NAD regenerated, hence glycolysis can continue
Reversible reaction
The structure of the mitochondrion is related to its function:
Double membrane
Inner membrane is folded / cristae has a large surface area; has ATP synthase /
stalked particles; has carrier proteins / cytochromes for the site of ETC /
chemiosmosis
Mitochondrial matrix contains enzymes; is the site of link reaction and the Krebs
cycle
Outer membrane has protein carriers for pyruvate and reduced NAD
Intermembrane space has low pH due to high concentration of protons from ETC,
creating a proton gradient between intermembrane space and matrix, resulting to
the synthesis of ATP
The post-exercise uptake of extra oxygen is called the oxygen debt
Respiratory substrates:
Most energy liberated in aerobic respiration comes from the
oxidation of hydrogen to
water, hence the greater the number of hydrogens in the structure the greater the energy
value
The energy value of a substrate us determined by
burning a known mass of the substance
in oxygen in a calorimeter, where the energy liberated can be determined from the rise in
temperature of a known mass of water in the calorimeter
Lipids have a higher energy value than carbohydrates due to the
higher number of C-H
bonds, hence yields more reduced NAD, so produces more ATP per gram, thus more
aerobic respiration / oxidative phosphorylation / chemiosmosis; fats can only be broken
down aerobically
Respiratory quotient:
Shows the
substrate used in respiration and whether or not anaerobic respiration is
occurring
RQ=
For the aerobic respiration of glucose:
For the aerobic respiration of fatty acid oleic acid:
For anaerobic respiration (e.g. alcoholic fermentation):
Or yields a high value (> 1.0), as some of the
respiration might still be aerobic
No RQ can be calculated for muscle cells using lactate pathway, as no CO2 is
produced:
he respiration of glucose in anaerobic conditions
oxygen is not available as a final
electron acceptor, hence oxidative phosphorylation on the ETC, where most ATP are
produced – produces less ATP than in aerobic conditions as only glycolysis (substrate-linked
phosphorylation) occurs (only produces a net gain of 2 ATP); pyruvate converted to lactate
which is energy rich
Oxygen debt is needed to
Convert lactate to pyruvate in the liver cells, re-oxygenate
haemoglobin, and to meet demands of continued increased in metabolic rate
Adaptations of rice to grow with its roots submerged in water in terms of tolerance to
ethanol from respiration in anaerobic conditions and the presence of aerenchyma:
Aerenchyma in stem and roots which help oxygen to, move / diffuse, to the roots ;
Shallow roots
Air film trapped on underwater leaves
Has fast internode growth
Modified growth regulated by gibberellin
Anaerobic respiration underwater
Tolerance to high ethanol concentration
Ethanol dehydrogenase switched on in anaerobic conditions
Carbohydrates conserved
Respirometers
To measure rate of oxygen consumption during respiration
CO2 produced absorbed by concentrated solution of KOH / NaOH
Oxygen consumption in unit time read through the level of the manometer fluid
against the scale, decrease or increase
Changes in temperature and pressure alter the volume of air in the apparatus,
hence needed to be kept constant (e.g. electronic water bath & a control tube –
with equal volume of inert material to the volume of the organisms to compensate
for changes in pressure)
Can be used to measure the RQ of an organism done by noting down the found
oxygen consumptions; set up with the same controls, but with no CO2 absorbing
chemicals
DCPIP / methylene blue – investigating the rate of respiration using a redox dye
Turns from blue to colourless; the rate of change from blue to colourless is a
measure of the rate of respiration; can be used to investigate effects of
temperature / different substrate concentrations
Photosynthesis is the
the fixation of CO2 and its subsequent reduction to carbohydrate, using
hydrogen from water, taking place in the chloroplast; where two reactions are involved:
light dependent reactions and light independent reactions
The photosynthetic pigments involved fall into two categories:
primary pigments
(chlorophylls) and accessory pigments (carotenoids) of which are arranged in light
harvesting clusters called photosystems (I and II), where several hundred accessory
pigment molecules surround a primary pigment molecule to pass absorbed light energy
towards the primary pigment – the reaction centre
light dependent reactions happens in
thylakoids (holds ATP synthase):
Light energy is necessary for the synthesis of
ATP in photophosphorylation and the
splitting of water (photolysis – photosystem II) into hydrogen ions (combine with a
carrier molecule NADP to make reduced NADP) and oxygen – waste product
Photophosphorylation of ADP to ATP are of two types:
cyclic and non-cyclic
Cyclic phosphorylatio
Only involves photosystem I
Light absorbed by photosystem I passed to the primary pigment resulting to
the excitation of an electron for which is emitted from the chlorophyll
molecule (photoactivation) and captured by an electron acceptor to be
passed onto the electron transport chain
Protons from photolysis pumped into the membrane space to synthesise
ATP from ADP and an inorganic phosphate group (Pi) by the process of
chemiosmosis for which goes to the light independent stage (Calvin cycle) to
produce complex organic molecules
Non-cyclic phosphorylation
Involves both the photosystems
Light is absorbed by both photosystems resulting to excited electrons
emitted from the primary pigments of both reaction centres, which are then
absorbed by electron acceptors and pass along the ETC
The primary pigment of photosystem I absorbs electrons from photosystem
II for which receives replacement electrons from the splitting of water
(photolysis)
Protons from photolysis pumped into the membrane space to synthesise
ATP from ADP and an inorganic phosphate group (Pi) by the process of
chemiosmosis for which goes the light independent stage (Calvin cycle) to
produce complex organic molecules
Light independent reaction (Calvin cycle) happens in
stroma
Light independent reaction (Calvin cycle) – stroma :
Carbon dioxide reaches the inside of a palisade mesophyll cell from the external
atmosphere through the stomata by diffusion down a concentration gradient, and
passes through air spaces; dissolves in film of water on cell surface then diffuses
through cell wall / surface membrane of palisade cells
Using a series of enzyme-controlled reactions:
Fixation of carbon dioxide by combination with RuBP, a 5C compound,
(carboxylation) – using Rubisco enzyme – to form an unstable 6C
intermediate, resulting to 2 molecules of GP, a 3C compound; using ATP and
reduced NADP from the light dependent reaction reduces GP to TP for
which most of it regenerates to form RuBP while others undergo
rearrangement of carbons to form pentose sugars / lipids / amino acids /
hexose sugars; ATP is required for the phosphorylation of ribulose
phosphate into ribulose bisphosphate
Role of accessory pigment in photosynthesis:
passes energy to primary pigment; absorb
light wavelengths that primary pigment does not; forms part of the light-harvesting cluster
of pigments (photosystem)
Chlorophyll absorb mainly in the
red and blue-violet regions of the line spectrum and
reflects green light; whereas carotenoids absorb mainly in the blue-violet region of the
spectrum
An absorption spectrum
is a graph that shows the, absorbance / absorption, of different
wavelengths of light by chloroplast pigments
An action spectrum
is a graph of the rate of photosynthesis at different wavelengths of
light, showing the effectiveness of different wavelengths related to their absorption and
energy content
action spectrum
nvestigation to determine the effect of light intensity or light wavelength on the rate of
photosynthesis using a
redox indicator (e.g. DCPIP) and a suspension of chloroplasts (the
Hill reaction):
The main external factors that affects the rate of photosynthesis:
light intensity and
wavelength, temperature, and carbon dioxide concentration
The rate of any process which depends on a series of reactions is limited by
the slowest
reaction in the series
Chromatography – to
separate and identify chloroplast pigments and carry out an
investigation to compare the chloroplast pigments in different plants (reference should be
made to Rf values in identification):
chromatography process
Usage of a chromatogram
Place spot of pigments on pencil mark at base of the paper
Dry and repeat to concentrate spot
Dip the paper / chromatogram in the solvent (ethanol) to travel up the paper
Measure distance travelled by solvent (front) and pigment (spot)
Calculate the Rf value = distance travelled by pigment spot / distance travelled by
solvent front
Look up / compare results with known Rf values to identify pigments
Chloroplasts can move within
palisade cells to maximise the amount of light absorption of
light and to avoid damage by high light intensities
In the light independent stage of photosynthesis, carbon dioxide combines with RuBP
to
form a six-carbon compound, which immediately splits to form two three-carbon
molecules (GP), these plants are called C3 plants; However, maize and sorghum plants –
and most other tropical grasses – do something different, as their first compound that isproduced in the light independent reaction contains four carbon atoms, therefore are
called C4 plants
Rubisco catalyses
he reaction of both carbon dioxide and RuBP; oxygen with RuBP
(photorespiration), causing less photosynthesis to take place as less RuBP available to
combine with carbon dioxide; occurs readily in high temperatures and light intensity
C4 plants keep
RuBP and Rubisco away from high oxygen concentrations in the bundle
sheath cells around the vascular bundles
Carbon dioxide is absorbed by the
tightly mesophyll cells (so O2 cannot reach the bundle
sheath cells), which contains PEP carboxylase enzyme (has high optimum temperature and
does not accept O2) catalysing the combination of CO2 with a 3C compound, PEP, resulting
to oxaloactetate, 5C, which is converted into malate and passed to the bundle sheath cells – hence maintaining a high concentration of carbon dioxide – for which CO2 is fixated with
RuBP in the light independent reaction; photorespiration is avoided
The high surface area of the
thylakoid membrane and the large size and number of grana
results to the high absorption of light, hence high photophosphorylation and more
chemiosmosis; the large thylakoid space helps increase the proton gradient hence more
ATP and reduced NADP produced, thus high rate of light independent reaction
Homeostasis
to maintain a constant/stable internal environment in the body
The importance of homeostasis in a mammal:
To maintain a constant internal environment of blood and tissue fluids within
narrow limits / set point, effects:
Low temperature, consequence: slowed metabolism / enzymes less active
High temperature, consequence: enzymes denatured
Low water potential, consequence: water leaving cells / cells shrink
High water potential, consequence: water enters cells / cells burst
Low blood glucose, consequence: effect on respiration
High blood glucose, consequence: water leaving cells / cells shrink
Control of pH, consequence: enzymes become less active
Control mechanisms use a negative feedback loop involving:
Receptor (sensor) detects changes in both internal and external stimuli (any
change in a physiological factor being regulated) away from the set-point; nerve
impulse sent to a central control or hormone released, which then reaches the
effectors (muscles and glands) / target organs; effector performs corrective action,
hence factor returns to set-point
Continuous monitoring of the factor by receptors produces a
steady stream of information
to the control centre that makes continuous adjustments to the output, hence the factor
fluctuates around a particular set point
Negative feedback:
the mechanism to keep changes in the factor within narrow limits, by
increasing or decreasing accordingly during a change in the factor
Two coordination systems in mammals:
Nervous system, by electrical impulses transmitted along neurones
Endocrine system, by hormones (chemical messengers) travel in the blood
Thermoregulation
is the control of body temperature involving both coordination systems,
controlled by the hypothalamus – receives constant input of sensory information about temperature of the blood (by the themorecepter cells monitoring the core temperature)
and the surroundings (skin receptors)
If there is a decrease in temperature,
ypothalamus sends impulses that activate several
physiological responses which decreases the loss of heat from the body and increases heat
production:
physiological responses which decreases the loss of heat from the body and increases heat
production:
Vasoconstriction – contraction of the muscles in the walls of the arterioles in skin
surface, narrowing the lumens, reducing the supply of blood, hence less heat lost
from the blood
Shivering – involuntary contraction of the skeletal muscles generate heat, absorbed
by the blood
Raising body hairs – contraction of the muscles attached to the hairs, increasing the
depth of fur and the layer of insulation, trapping air close to the skin
Decrease in sweat production – reduces heat loss by evaporation from skin surface
Increase secretion of adrenaline – increases the rate of heat production in the liver
A decrease in temperature gradually (e.g. winter),
the hypothalamus releases a hormone
which activates the anterior pituitary gland to release thyroid stimulating hormone (TSH)
what does TSH do
TSH stimulates the thyroid gland to secrete thyroxine hormone into the blood,
increases the metabolic rate, increases the heat production
When temperature starts to increase again, the hypothalamus responds by
reducing the release of TSH by the anterior pituitary gland, hence less thyroxine
released from the thyroid gland
If there is a increase in temperature
hypothalamus increases the loss of heat from the
body and reduces heat production:
hypothalamus increases the loss of heat from the
body and reduces heat production:
Vasodilation – relaxation of the arterioles in skin, hence it widens, more blood flows
to the capillaries, heat energy lost
Increasing sweat production – sweat glands increase production of sweat which
evaporates on the surface of the skin, removing heat from the body
Lowering body hairs – relaxation of the muscles attached to the hairs, hence they
lie flat, reducing the depth of fur and layer of insulation
Excretion:
the removal of unwanted products (e.g. ammonia – toxic) of metabolism
Urea is produced in the
liver from excess amino acids, transported to the kidney in
solution in the blood plasma through diffusion from liver cells, which will then be
removed from the blood, dissolved in water and excreted as urine
The formation of urea from excess amino acids by liver cells:
Deamination / removal of amine group and ammonia (NH3) formed, which is then
combined with carbon dioxide forming the urea cycle
Ammonia is a soluble and toxic compound, hence needed to be converted into urea
(main nitrogenous excretory product) – less soluble and less toxic
Structure of kidney:
Each kidney receives blood from a renal artery; return blood via a renal vein
Narrow tube – ureter – carries urine from kidney to bladder
Urethra – single tube – carries urine to the outside of the body
A longitudinal section through a kidney (Fig 14.6) shows its main areas
Capsule covering the whole kidney
Cortex lying beneath the capsule
Medulla – central area of kidney
Pelvis – where ureter joins
A kidney is made up of thousands of
tiny tubes called nephrons and many blood
vessels
nephron structure
One end of the nephron forms a cup-shaped structure called Bowman’s capsule,
surrounding a tight network of capillaries called a glomerulus (both located on the
cortex)
The tube then forms a twisted region called the proximal convoluted tubule
Which then runs down towards the centre of the kidney (medulla) forming the loop
of Henle
It then runs back upwards into the cortex forming another twisted region called
distal convoluted tubule
Before finally joining a collecting duct that leads down through the medulla and
into the pelvis of the kidney
Each glomerulus is supplied with blood from a branch of renal artery called an
afferent arteriole
The capillaries of the glomerulus rejoins to form an efferent arteriole, which leads
off to form a network of capillaries running closely alongside the rest of the
nephron, where it then flows into a branch of the renal vein
The kidney makes urine in a two-stage process:
Ultrafiltration – filtering of small molecules including urea into the Bownman’s
capsule from the blood
Selective reabsorption – taking back useful molecules from the fluid in the nephron
as it flows along
Water potential:
tendency of water molecules to move from one region to another
Ultrafiltration
The blood in the glomerular capillaries is separated from the lumen of the
Bowman’s capsule by two cell layers (endothelium of the capillary and epithelial
cells (podocytes – having finger-like projections with gaps in between them) making
the inner lining of the Bowman’s capsule) and a basement membrane The diameter of lumen of the afferent arteriole is wider than efferent arteriole,
which leads to high blood pressure (hydrostatic pressure) and low pressure in the
Bowman’s capsule, hence plasma/fluid passes through the fenestrations between
the endothelial cells of the capillaries; however, red and white blood cells / large
proteins (plasma proteins) / molecules greater than 68 000(MM), cannot pass
through due to the basement membrane which acts as a selective barrier; filtrate
through the basement membrane can freely pass through the podocytes due to its
fenestrations and forced into the Bowman’s capsule (renal capsule)
Reabsorption in the proximal convoluted tubule
Process called selective reabsorption (above 180 mg, no further absorption, as
carriers in the PCT are saturated)
Lining of the proximal convoluted tubule is made of a single layer of cuboidal
epithelial cells
single layer of cuboidal
epithelial cells which are adapted to their function of reabsorption by having:
Microvilli to increase the surface area of the inner surface facing the lumen
to increase absorption of Na+ / glucose / amino acids
Tight junctions to hold adjacent cells together so that fluid cannot pass
between the cells (all reabsorbed substances must go through the cells)
Many mitochondria to provide ATP for sodium-potassium (Na+-K+) pump
proteins in the outer membranes of the cells
Many co-transporter proteins in the membrane facing the lumen
Folded basal membrane to increase surface area to increase sodium
potassium pumps to move Na+ into the blood
More ER for increase in protein synthesis
The folded basal membranes of the cells lining the proximal convoluted tubule are
those nearest the blood capillaries; s
odium–potassium pumps in these membranes
move sodium ions out of the cells; the sodium ions are carried away in the blood,
lowering the concentration of sodium ions inside the cell, so that they passively
diffuse into it, down their concentration gradient, from the fluid in the lumen of the
tubule; however, sodium ions do not diffuse freely through the membrane – only
enter through special co-transporter proteins in the membrane, each of which
transports something else, such as a glucose molecule or an amino acid, at the
same time as the sodium ion (the passive movement of sodium ions into the cell
down their concentration gradient provides the energy to move glucose molecules,
against a concentration gradient – indirect or secondary active transport, since the
energy (as ATP) is used in the pumping of sodium
All of the glucose, amino acids, vitamins and many Na+ and Cl- ions, some urea and
most water are
reabsorbed from the glomerular filtrate into the blood, which
increases the water potential in the filtrate, hence water moves down this gradient
through the cells into the blood
Reabsorption in the loop of Henle and collecting duct
absorption in the loop of Henle and collecting duct
Descending limb is permeable to water, ascending limb does not
In the ascending limb, active transport of Na+ and Cl- ions out of loop into the tissue
fluid, which decreases the water potential in the tissue fluid and increases the
water potential of the ascending limb’s water potential
Descending limb permeable to both water and Na+ and Cl- ions, hence as fluid
moves down the loop, water from filtrate moves down a water potential gradient
into the tissue fluid by osmosis, while Na+ and Cl- ions diffuse into the loop, down
their potential gradient, thus the fluid becomes more concentrated towards the
bottom of the loop; the longer the loop, the more concentrated the fluid can
become
Concentrated fluid flows up the ascending limb where Na+ and Cl- ions diffuse out in
the lower part of ascending limb; and active transported out on the upper part of
ascending limb Counter-current multiplier mechanism used – fluid flowing in vertically opposite
directions to maximise the concentration built up of solutes both inside and outside
the tube at the bottom of the loop
As fluid flows up the ascending limb of the loop of Henle,
it loses sodium and
chloride ions as it goes, so becoming more dilute and having a higher water
potential; cells of the ascending limb of the loop of Henle and the cells lining the
collecting ducts are permeable to urea which diffuses into the tissue fluid, hence
urea is also concentrated in the tissue fluid in the medulla, so water can move out
of the collecting duct by osmosis, due to the tissue fluid’s high solute concentration
and low water potential
Reabsorption in the distal convoluted tubule and collecting duct
Na+ ions are actively pumped from the fluid in the tubule into the tissue fluid, into
the blood
K+ ions are actively transported into the tubule, where the rate of transfer of the
two ions are variable, helps regulate the concentration of these ions in the blood
Osmoregulation:
: the control of the water potential of body fluids
Roles of hypothalamus, posterior pituitary, collecting ducts and ADH in osmoregulation:
Hypothalamus detects changes in water potential of the blood, as osmoreceptors
(in the hypothalamus) shrink when there is a low water potential (ADH produced in
hypothalamus), and released into the blood via the posterior pituitary gland
Nerve impulses are sent from the hypothalamus to posterior pituitary gland
ADH bind to receptor proteins on the collecting duct cell surface membranes and
affects the collecting duct by activating series of enzyme controlled reactions,
activating vesicles containing aquaporins in their membranes to move to cell
surface membrane on lumen side; fuses with the cell surface membrane, hence
increases water permeability of collecting duct cells, causing more water
reabsorption / more concentrated urine, as water moves through the aquaporins,
out of the tubule into the tissue fluid down water potential gradient
Homeostatic control of blood glucose concentration is carried out by
two hormones
secreted by endocrine tissue – consisting of groups of cells known as islets of Langerhans
(containing cells secreting glucagon; cells secreting insulin) in the pancreas