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Lect 4 - Hydrodynamic Methods
Lect 4 - Hydrodynamic Methods
Lect 4 - Hydrodynamic Methods
Not all liquids are the same. Some are thin and flow easily
these have a low viscosity. Others are thick and gooey
and have a high viscosity.
MILO Honey
CONTONUE….
Viscosity is the measure of a fluid’s resistance to flow
Weak vs strong intermolecular forces
Real fluids have a certain amount of internal friction
Increasing temperature lowers the viscosity of liquid
TWO TYPES OF VISCOSITY
Dynamic (or Absolute) Viscosity:
The dynamic viscosity(η) of a fluid is a measure of the resistance
it offers to relative shearing motion.
η= F/ [A×(u/h)]
η= τ /(u/h) N.s/m²
Kinematic Viscosity :
It is defined as the ratio of absolute viscosity to the density of
fluid.
ν= η/ρ m²/s ; ρ= density of fluid
VISCOSITY MEASUREMENTS
Capillary Viscometers
It gives the ‘kinematic viscosity’ of the fluid. It is based on
Poiseuille’s law for steady viscous flow in a pipe.
WHEN DO WE NEED TO USE DYNAMIC VISCOSITY MEASUREMENT
- When you want to know the internal resistance of a fluid OR the force required to
move one plane of the liquid over another.
For Example:
size
shape
density
Rotor speed
CENTRIFUGATION
A centrifuge is used to separate particles of macromolecules :
-CELLS, SUB-CELLULAR COMPONENTS, PROTEINS, NUCLEIC ACIDS
Basis of separation: -SIZE, SHAPE, DENSITY
Methodology:
- utilizes density differences between the particles/macromolecules
and the medium in which these are dispersed.
- Dispersed systems are subjected to artificially induced
gravitational fields
Physical Basis of Centrifugation
The force that the sample is subjected to, is expressed as some number
times the force of gravity, or relative centrifugal force (RCF).
DENSITIES OF BIOLOGICAL MATERIAL
Material Density (g/cm3)
Microbial cells 1.05-1.15
Mammalian cells 1.04-1.10
Organelles 1.10-1.60
Proteins 1.30
DNA 1.70
RNA 2.00
The Centrifugal Force
Fc = M * ω2 * r
Mo is the particle weight, or molecular weight
(omega)= angular velocity (radians/sec)
Ff= f. v
where
f – frictional coefficient
v - velocity of the particles
1) The size
2) shape of the molecule,
3) the viscosity of the gradient material.
Fb = mdis .ω2.r
Particles behaviour in centrifugal force
Sedimentation Velocity
Sedimentation Coefficient (S for Svedberg)
Diffusion Coefficient
What is important is that S can be measured and will give an important clue
as to the physical structure and size of the particle.
S = 1/ ω2r × dr/dt
M or Mr-molecular mass
R- physical constant
T- absolute temperature
D- diffusion coefficient
s- sedimentation coefficient
The Svedberg Equation (Please refer SHEET 1 -
Derivation of Sedimentation Coefficient Equation)
It is the time dimensional constant of sedimentation
coefficient.
• For 2particlese of unequal mass by same shape and size, the one with high mass will travled down to the bottom of
test tube rapidly
• More spherical particles have lower frictional coefficient (f) values than of less spherical particles of equal mass.
Therefore, more spherical particles move more rapidly.
Methodology:
- Utilizes density difference between the particles and the medium in which these
are dispersed
- Dispersed systems are subjected to artificially induced gravitational fields.
- The centrifugal force causes the sedimentation of heavier solid particles.
Supernatant
Induced
gravitatio Precipitate
nal field
Suspension In process Separation
complete
Parameters centrifugation
2. Type of centrifuge:
Low speed , high Speed, ultracentrifuge
3. Type of centrifugation
Differential, preparative, or analytical
Swinging-bucket
At rest Spinning g
g
Fixed-angle
Types of Centrifuge
Low Speed Centrifuge
Also called: microfuge, Clinical, Table top or bench top centrifuges
Preparative centrifuges.
Max speed ~ 80,000 rpm
Often refrigerated, and requires vacuum to operate
Fixed angle or swinging bucket can be used
Generally used to separate macromolecules (proteins or nucleic
acids) during purification or preparative work.
Can be used to estimate sedimentation coefficient and MW,
No optical read-out
Preparative ultracentrifuge
Ultracentrifuge
Differential Analytical
Centrifugation Ultracentrifugation
Density gradient
centrifugation
Sedimentation Sedimentation
Velocity Equilibrium
Analysis Analysis
Zonal Isopycnic
Subcellular Fractionation
Consequence:
Nucleus 4-12 m
Plasma membrane sheets 3-20 m
Golgi tubules 1-2 m
Mitochondria 0.4-2.5 m
Lysosomes/peroxisomes 0.4-0.8 m
Microsomal vesicles 0.05-0.3m
Differential Centrifugation of A Tissue
Homogenate
Decant
1000g/10 min supernatant
g = centrifugal force
Differential Centrifugation
lipoproteins,
nucleic acids,
polysaccharides,
subcellular particles,
cells
viruses.
Outline design of an analytical ultracentrifuge.
Sample is placed in a sample cell in a rotor contained in an evacuated and
refrigerated chamber. Centrifugation is carried out at very high speed during
which the behaviour of the sample is analysed. The cell is scanned with
parallel light as it passes through the detection system on each revolution.
Sedimentation Velocity Analysis
An analytical ultracentrifugation
(AUC) method that measures the
rate at which molecules move in
response to centrifugal force
generated in a centrifuge.
Sedimentation velocity is particularly valuable for;
Ultrafiltration
Dialysis
Precipitation
Ultrafiltration (UF)
The type of salt being used and the concentration of the salt can
be varied to selectively precipitate a the molecule
MECHANISM OF SALTING OUT
The conformation of large biomolecules in vivo is typically controlled by
hydrophobic and hydrophillic interactions with the cellular environment. These
interactions largely govern the molecule's final conformation by folding in such a
way that most hydrophobic functional groups are shielded from the polar cellular
environment. To achieve this conformation the molecule folds in such a way that all
of the hydrophobic parts of a molecule are aggregated together and the
hydrophillic groups are left to interact with the water. In the case of proteins it is
the charged amino acids that allow selective salting out to occur. Charged and
polar amino acids such as glutamate, lysine, and tyrosine require water molecules
to surround them to remain dissolved. In an aqueous environment with a high ionic
strength, the water molecules surround the charges of the ions and proteins. At a
certain ionic strength, the water molecules are no longer able to support the
charges of both the ions and the proteins. The result is the precipitation of the least
soluble solute, such as proteins and large organic molecules.
Immunoprecipitation
Immunoprecipitation is a technique that uses antibodies
specific to a protein to remove those proteins from solution.
FLOW CYTOMETRY
WHAT IS FLOW CYTOMETRY
▪ Technical process that allows for the individual
measurements of cell fluorescence and light
scattering. This process is performed at rates of
thousands of cells per second.