Theory & Appl. Light Microscopy Phase Contrast Optics.
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Transcript of Theory & Appl. Light Microscopy Phase Contrast Optics.
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Theory & Appl. Light Microscopy
Phase Contrast Optics
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Theory & Appl. Light Microscopy
Abbé Theory
• Designed optics for amplitude objects
• Absorb light without change in phase of light waves
• Based on assumption of no difference in index of refraction between specimen and background
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Criterion for Resolution
• Lens must capture undiffracted light plus at least first order of diffracted rays
• Combine these in image plane by interference
• But — most biological specimens (esp. living) are not amplitude objects
• Phase Objects
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Theory & Appl. Light Microscopy
Phase Objects
• Do not absorb light
• Difference in index of refraction between specimen and background
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Example: Cell
• Object 1.25 m thick, i.r. = 1.35; i.r. water = 1.30 (0.05 difference)
• Difference in path length for light = 1.25 (0.05) = 0.0625 m
• 62.5/500 nm = 1/8 wavelength /8 = /4 radians = 45°• This is difference in phase of wave
passing through cell against wave passing next to cell
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Phase Differences
• Our eyes cannot see this
• Eyes set for amplitude differences, so cell is essentially transparent
• But — information is present in light beams from specimen and in image
• How do we see this?
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Theory & Appl. Light Microscopy
Frits Zernike (1888–1966)
• Dutch physicist
• Developed vector notation for theory of light propagation through phase objects
• Invented phase contrast optics in 1930; not manufactured until 1941 by Zeiss
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Theory & Appl. Light Microscopy
P
S
Zernike Phase Vector DiagramFor propagation of light through phase object
Length of P = amplitude specimen/amplitude medium =
transmission ratio
S = incindent wave
P = particle wave
P = phase shift of ray through specimen
(S = U, undiffracted (0-order) ray
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Theory & Appl. Light Microscopy
P
U
D
D = of all diffracted orders of light from specimen
U = undiffracted light
P = resulting specimen light, produced by interference between U and D in image formation
Calculate P by vector addition
U + D = P
By the law of sines
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Brightfield Optics
• Shifts all vectors in phase equally, and may change all amplitudes equally:
U + D = PU = P
• No amplitude image• Information in P is present in
, not in amplitude — eye cannot see this
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Phase Contrast Imaging
• Basic principle:– Shift phases (s) and/or amplitudes
of U and D differentially– This can produce a change in
amplitude of P (length of vector)
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U'
D
P
U
D
P'
U'
D'D'
In specimen In microscope At image plane
U = P U' P'
Amplitude!
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Theory & Appl. Light Microscopy
Phase Contrast Optics
• Physically separates U and D light and subjects one or the other to phase shift and/or amplitude shift
• In theory, any shift of U and D are possible
• In practice, a shift of 90° (/4) is appropriate for most biological specimens
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Optical Arrangements
• Several possible, but major design challenge to keep U and D rays separate and handled differently
• In practice, use a hollow cone of light to illuminate specimen– Phase Annulus below condenser– Phase plate at back focal plane of
objective
• Only 0 order rays from annulus pass through plate
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Phase Plate
• Rings in phase plate can include– Attenuating layer (absorption
but no phase shift), or– Phase-shifting layer (no
absorption, phase shift only), or– Any combination of the two
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Theory & Appl. Light Microscopy
Positive/Negative Phase
• Positive Phase Specimen dark against light background (usual now)
• Negative Phase Specimen bright against dark background (looks like darkfield optics)
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P
U
D
U = P
P'
U'
D'
U' > P'
Positive Phase
Retard D relative to U (move D vector clockwise)
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P
U
D
U = P
P'
U'
D'
U' < P'
Negative Phase
Advance D relative to U (move D vector counterclockwise)
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Example Systems
• Anoptral Phase Contrast Change amplitude of U (soot on ring), no phase shifts for either U or D rays. Bright image — negative phase
Popular among algae workers in Great Britain in 50s–60s
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P
U
D
U = P
P'
U'
D'
U' < P'
Anoptral Phase
Produces delicate image against brown background
No phase shifts on ring
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Example Systems
• Zernike Phase Contrast Differential changes in amplitude and phase of U and D rays.
• All combinations possible:– Amplitude absorption with no
phase shift (metal coating)– Phase shift wavefront with no
absorption (silica coating)
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From: Rose & Pomerat (1960) J. Biophys. Biochem. Cytol. 8:423.
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Theory & Appl. Light Microscopy
Use/Limitation of Phaseco
• Use for qualitative, not quantitative evaluation of specimens
• Reasons:– Intensity differences in image not
uniquely related to index of refraction differences of specimen
– Phase halo — optical artifact Cannot completely separate U and D rays in optics
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Theory & Appl. Light Microscopy
Intensity Differences
• Two points may have same image intensity, but have different values (different i.r.s)
• I.e., if IP/IU of at 240° identical to ratio at 320°, then how distinguish different i.r.?
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Theory & Appl. Light Microscopy
Phase Halo
• Serious artifact, most prominent at boundaries of sharp differences in i.r.
• Exceeds ability of optics to produce an accurate image
• So identification of exact boundary of specimen from image is very difficult
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Reducing Phase Halo
• Modification of design of phase plate
• Apodized Phase Contrast Addition of neutral density filters to phase plate to suppress halo
• Optical Process
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Reducing Phase Halo
• Modification of specimen and medium• Worst halo comes from abrupt i.r.
difference between specimen (cell) and medium it is in
• Match i.r. of medium to i.r. of specimen to reduce halo
• Barer & Joseph (1957) Symp. Soc. Exp. Biol. 10:160–184.
• Use of non-osmotic solutes to increase medium index of refraction
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Theory & Appl. Light Microscopy
Interference Microscopy
• Like phaseco in that imaging produces amplitude differences from phase differences in specimen
• Quantitative Techniques
• Qualitative Techniques
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Theory & Appl. Light Microscopy
Optical Path Difference
• Specimen vs. medium' = (s - m)t
' = optical path length
t = physical thickness
Can measure ', then calculate s = ('/t) + m
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Theory & Appl. Light Microscopy
Dry Mass Calculations
• Derived from '
• Need to determine , the refractive increment (difficult)
(For most biological specimens, = 1.8 x 10-3 i.r./gm solute/100 ml)
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Theory & Appl. Light Microscopy
• C (dry weight concentration) = (specimen - water)/ = (s – 1.33)/1.8 x 10-3 = gm/100 ml = gm solids x 100/(area x thickness)
' = C t
• Mass of solids per cell = (' x area)/100 = (' x area)/0.18
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Theory & Appl. Light Microscopy
Double Beam Interference
• Phaseco — image formed from interference between 0 order and diffracted orders from specimen
• Double Beam Interference — image arises from interference between light from specimen and from a reference beam that does not pass through specimen
• (No phase halos from incomplete separation of U and D rays)
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Vector Diagrams
U'
U
R
R = reference beam = U = P = A0
U' = 2 A0 1.4 A0
P'
P
R
Interference between P and R produces P' 1.8 A0
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Theory & Appl. Light Microscopy
• Image– Specimen bright against
background– Ratio of intensities
(1.8/1.4)2 1.6
• Can vary amplitude and phase of R vector to produce negative contrast as well
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Theory & Appl. Light Microscopy
Coherent Optics
• For this to work, the specimen and reference beams must be coherent to one another
• (Not needed for phaseco: U and D emerge from same point in specimen and are automatically coherent)
• Light from source must be split into 2 beams and reunite these in image
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Theory & Appl. Light Microscopy
Mach-Zender Double Microscope
• Classical form
• Difficult to construct
• Difficult to set up optics
• Difficult to interpret images
• Beam splitter system must have twin matched objectives and condensers (and add appropriate compensators)
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Theory & Appl. Light Microscopy
• Image contains interference fringes in a gradient across field: /2, 3/2, 5/2, 7/2, etc.
• Displacement of fringe is related to difference in optical path through the specimen: '
• Measure physical thickness of specimen and calculate C and dry weight
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Theory & Appl. Light Microscopy
Not Commonly Used
• Mach-Zender expensive and specialized
• More commonly used systems: split beam interference optics
• Single condenser and objective used
• Reference and Specimen beams present in same system
• Double Beam Interference Optics
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Theory & Appl. Light Microscopy
Jamin-Lebedeff Microscope
• Special attachments applied to condenser and objective, as well as polarizer and analyzer system
• About 2/3 of field has useable image (rest has ghost image)
• Rotation of analyzer allows quantification of image information
• Angle information produces '• Then measure vertical thickness of
specimen to calculate dry weight
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
Problems with Designs
• Image deteriorates with higher magnification objectives (40x max)
• Optical path differences in different scopes
• Contrast is lost with open aperture• Condenser and Objective must be
specially modified and are not useable for other optics
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Theory & Appl. Light Microscopy
Common Biological Use
• Nomarski Differential Interference Contrast (DIC)
• Qualitative, not quantitative use• Nomarski 1952 patent• (Allen, et al. (1969) Zeit. fur Wiss.
Mikros. 69:193)• DIC sensitive to d/ds, so shows
refractive gradients or interfaces
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Theory & Appl. Light Microscopy
Georges (Jerzy) Nomarski (1919–1997)
• Polish-born, lived in France after World War II
• Physicist, many inventions• Developed modification of
interference microscopes now known as differential interference contrast (DIC) optics
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Theory & Appl. Light Microscopy
Robert Day Allen (1927–1986)
• Pioneered practical applications of Nomarski’s system
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Theory & Appl. Light Microscopy
DIC• Complicated optical
arrangement involving polarizer, analyzer, double wollaston prisms.
• Polarizer produces light; lower wollaston prism separates that into 2 component beams polarized at right angles to one another
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Theory & Appl. Light Microscopy
• Lower wollaston also modified to separate two beams in space
• Each beam is R for the other• Displacement of beams is set for
each objective’s resolution:– 100x, NA 1.25 — 0.2 m– 40x, NA 0.65 — 0.55 m– 16x, NA 0.32 — 1.32 m
• Upper wollaston recombines 2 beams into same path, but is adjustable
• Usually displace from precise recombination
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Theory & Appl. Light Microscopy
Nomarski Image
• Result is extinction (shadow) on one side of specimen and reinforcement (bright) on the other
• Shear of image
• False relief 3D image
• Consider wavefront diagrams
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Theory & Appl. Light Microscopy
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Theory & Appl. Light Microscopy
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Shear in Image
• Degree of shear is set by wollaston combination
• Bias of shear adjustable by shifting upper wollaston position to retard one beam more or less relative to other
• Cannot be used for quantitative measurements of dry mass
• But extremely useful for observing living cells
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Comparison of Nomarski and Phase Contrast Optics
Phase Contrast
Cheaper
Easier to set up
Uses less than full aperture of objective
Phase Halo — surrounds specimen and other changes in i.r.
Nomarski
More expensive
Fussy alignment
Uses full aperture — closet to theoretical limit
Shadow Effect — contrast greatest at shear direction maximum
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Phase Contrast
Insensitive to birefringence in specimen or slides
Extremely large depth of field — sensitive to artifacts far out of plane of specimen
Doesn’t work well with stained specimens
Nomarski
Optics disrupted by birefriengence
Extremely shallow depth of field — useful for optical sectioning of specimen
Works well with stained specimens; optics can be adjusted to enhance contrast
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