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F. Ayaydin November 28, 2018
1
Advanced fluorescence microscopy techniques
Ferhan AyaydinBRC, CELLULAR IMAGING (CI) LABORATORY
28 November 2018
„Practice-oriented, student-friendly modernization of the biomedical education for strengthening the international competitiveness of the rural Hungarian universities”TÁMOP-4.1.1.C-13/1/KONV-2014-0001
Lecture Outline
History of microscopesFluorescence and Fluorochromes
Fluorescence MicroscopeConfocal Microscope
Applications of Confocal Microscope
Ferhan Ayaydin
History of Microscopy
"Emeralds are usually concave so that they may concentrate the visual rays.The Emperor Nero used to watch in an Emerald the gladiatorial combats."
Pliny the Elder 23-79 A.D
F. Ayaydin November 28, 2018
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The first known compound microscope, made by Zacharias and Hans Janssen in the 1590's.
Antoni van Leeuwenhoek was an amateur Dutch scientist who was granted for his discoveries in microscopy and high quality, but crude optical microscopes.
Jeroen Rouw kema, Wikipedia
Public domain, Wikipedia
History of Microscopy
The Robert Hooke’s design was a functional improvement over the traditional motif, and even included a lighting apparatus to aid in specimen illumination
Hooke's microscope, from an engraving in Micrographia.
Public domain, Wikipedia Public domain, Wikipedia
History of Microscopy
History of Microscopy
18th Century MicroscopesEdal Anton Lefterov, Wikipedia
F. Ayaydin November 28, 2018
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19th Century
Hannes Grobe, Wikipedia
History of Microscopy
20th Century MicroscopesPublic domain, Wikipedia Public domain, Wikipedia
History of Microscopy
21st Century Microscopes
Ferhan Ayaydin
History of Microscopy
F. Ayaydin November 28, 2018
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fluorescent mineralsHannes Grobe, Wikipedia
UV light
white light
Fluorescence and Fluorophores
Didier Descouens, Wikipedia
the term fluorescence comes from the mineral “fluorite”
TransControl, Wikipedia
Fluorescence occurs when a molecule relaxes to its ground state following
excitation
Excitation: S0+hv S1
Emission: S1S0+hv
Stoke’s shift
Jablonski diagram of absorbance, non-radiative decay, and fluorescence
Public domain, Wikipedia
F. Ayaydin November 28, 2018
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Detection of proteins by Immunofluorescence
Common FluorochromesFITCRhodamineTexas RedCyanine dyes
Novel AlexaFluor dyeswide spectrum, stablebrighter and bleach resistant
Jakodak, Wikipedia
Maria Francia & Boris Striepen, University of Georgia, Wikipedia
Staining Organelles with FluorochromesNucleusDAPIHoechst dyesEthidium BromidePropidium IodideAcridine Orange
MitochondriaMitotrackerMitofluor dyesNonyl acridine orange
Golgi/ERER trackerfluorescent Ceramidefluorescent Sphingomyosin
LysozmeLysotrackerGerry Shaw , Wikipedia
What if my research project requires a fluorescent dye that….
...specifically stains lung cancer cells?Public domain, Wikipedia
F. Ayaydin November 28, 2018
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Novel fluorescent chemical discovery through combinatorial chemistry
Ferhan Ayaydin
Discovery of novel live cell permeable fluorescent chemicals
oil bodies
mitochondria
membrane
mitochondria
14585 compounds > microarray scanner > confocal microscopy
Ferhan Ayaydin and Soujanya Kuntam
Novel dyes to stain plant oil bodies in live cells
B2
C6
Ferhan Ayaydin and Soujanya Kuntam
F. Ayaydin November 28, 2018
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Green Fluorescent Protein :GFP
GFP is a small protein (27 kD) and the DNA sequences coding for GFP can be manipulated by recombinant DNA technology to create gene fusion
promoter | GFP | your favorite protein
promoter | your favorite protein | GFP
Sierra Blakely, Wikipedia
• The GFP chromophore consists of a cyclic tripeptide derived from Ser-Tyr-Gly at positions 65–67 in the protein and is only fluorescent when embedded within the fully folded, complete GFP molecule.
• EGFP: Ser65 to Thr mutation (UV to blue excitation)
• Nascent GFP is not fluorescent, since chromophore formation occurs post-translationally. The chromophore is formed by a cyclization reaction and an oxidation step at Tyr66 that requires molecular oxygen
The Mechanism of Glow
Jim G, Wikipedia
YELLOW Fluorescent Protein (YFP)(Thr 203 to Tyr)
Citrine variant is very bright relative to EYFP and has been demonstrated to be much more resistant to photobleaching, acidic pH, and other environmental effects
Another derivative, named Venus, is the fastest maturing and one of the brightest yellow variant
CYAN Fluorescent Protein (CFP)(Tyr66 to Tryptophan)
BLUE Fluorescent Protein (BFP)(Tyr66 to His)
Fluorescent Protein Color Variants
RED Fluorescent Protein (RFP)Susano-o, Wikipedia
F. Ayaydin November 28, 2018
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Artwork by Nathan Shaner, photography by Paul Steinbach, created in the lab of Roger Tsien in 2006, Wikipedia
A San Diego beach scene drawn with an eight color palette of bacterial colonies expressing fluorescent proteins derived from GFP and the red-fluorescent coral protein dsRed. The colors include BFP, mTFP1, Emerald, Citrine, mOrange, mApple, mCherry and mGrape.
The biggest advantage of using GFP is...
Ferhan Ayaydin
Nuno Nogueira, Wikipedia
upright inverted
Fluorescence Microscope
Masur, Wikipedia
F. Ayaydin November 28, 2018
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Henry Mühlpfordt, Krzysztof Blachnicki, Wikipedia
Fluorescence Microscope
Mercury Arc Lamp
UV IR
DETECTOR
filter block
dichoric mirror
Filter sets used in fluorescence microscopy
filter cube
Ferhan Ayaydin
excitation filter
emission filter
F. Ayaydin November 28, 2018
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Confocal laser scanning microscopy
Danh, Wikipedia
Optical sectioning with confocal microscope
Ferhan Ayaydin
Advanced Applications of Confocal Microscopy
Protein Dynamics and Interaction
A) Bleaching techniquesFRAP, iFRAP, FLIP
B) Photoconversion techniquesPA-GFP, Kaede/Kikume, PS-CFP, EosFP, DRONPA
C) Protein-protein InteractionsFRET, BiFC
F. Ayaydin November 28, 2018
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FRAP: Fluorescence Recovery After Photobleaching
Selective Laser bleachingwith Laser Scanning Confocal Microscope
Fluorescence recovery
A) Bleaching techniques: FRAP, iFRAP, FLIP
Ferhan Ayaydin
Ferhan Ayaydin
FRAP: Protein Mobility Comparison
protein X protein Y
A) Bleaching techniques FRAP, iFRAP, FLIP
FRAP: Kinetics of Fluorescence Recovery
A) Bleaching techniques FRAP, iFRAP, FLIP
immobile fraction
mobile fractionshalf recovery: t1/2
F. Ayaydin November 28, 2018
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Public Domain , Wikipedia
A) Bleaching techniques FRAP, iFRAP, FLIP
Diffusion-limited fluorescence recovery
Reaction-limited recovery
Ferhan Ayaydin
A) Bleaching techniquesFRAP, iFRAP, FLIP
iFRAP: Inverse FRAP
prebleach bleach recovery(outside of region of interest)
dissociation parameters of molecules can be measured
Region of interest(ROI) bleaching laser
A) Bleaching techniquesFRAP, iFRAP, FLIP
Ferhan Ayaydin
F. Ayaydin November 28, 2018
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A) Bleaching techniquesFRAP, iFRAP, FLIP
Ferhan Ayaydin
A) Bleaching techniquesFRAP, iFRAP, FLIP
Ferhan Ayaydin
Ferhan Ayaydin
F. Ayaydin November 28, 2018
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B) Photoconversion techniquesPA-GFP, Kaede/Kikume, PS-CFP, EosFP, DRONPA
Wikipedia
C) Protein-protein InteractionsFRET, BiFC
Ferhan Ayaydin
Ferhan Ayaydin
C) Protein-protein InteractionsFRET, BiFC
F. Ayaydin November 28, 2018
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Ferhan Ayaydin
C) Protein-protein InteractionsFRET, BiFC
C) Protein-protein InteractionsFRET, BiFC
BiFC: Bimolecular Fluorescence Complementation
Public domain,Wikipedia
Discussion:
What happens if we use half GFP, half CFP and half YFP?
Multicolor Complementation Is that possible?
C) Protein-protein InteractionsFRET, BiFC
F. Ayaydin November 28, 2018
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Public domain, Wikipedia
Thank you for your attention!
This work is supported by the European Union, co-financed by the European Social Fund, within the framework of " Practice-
oriented, student-friendly modernization of the biomedical education for strengthening the international
competitiveness of the rural Hungarian universities " TÁMOP-4.1.1.C-13/1/KONV-2014-0001 project.
