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    abberior instruments inverted sted microscope expert line
    Inverted Sted Microscope Expert Line, supplied by abberior instruments, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/inverted+sted+microscope+expert+line/inverted+sted+microscope/pmc11782495-229-6-10
    Average 90 stars, based on 1 article reviews
    inverted sted microscope expert line - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Microscopy:

    Article Title: STED microscopy reveals dendrite-specificity of spines in turtle cortex.
    Article Snippet: .. Slabs were imaged on an inverted STED Microscope (Expert Line, Abberior Instruments, Göttingen, Germany) with an 100x silicon oil immersion objective (UPLSAPO100XS, Olympus Germany, Hamburg, Germany) and a toroidal (“donut”) depletion pattern of the STED focus. ..

    Article Title: Dense 4D nanoscale reconstruction of living brain tissue.
    Article Snippet: .. STED microscopy was performed at room temperature on an inverted STED microscope (Abberior Instruments, Expert Line) with pulsed excitation and STED lasers. ..

    Article Title: Advantages of acute brain slices prepared at physiological temperature in characterization of synaptic functions
    Article Snippet: The slices were washed three times with PBS, transferred on the slide, covered with mounting medium (Abberior Mount Liquid Antifade) using coverslip (#1.5) and sealed with nail polish. .. 3D STED microscopy was performed on a commercial inverted STED microscope (Expert Line, Abberior Instruments, Germany) with pulsed excitation and STED lasers. ..

    Article Title: Distribution of spine classes shows intra-neuronal dendritic heterogeneity in mouse cortex
    Article Snippet: Care was taken that the sample was close to the cover slip; #1.5H coverslips (170 5 μm thick, Marienfeld, Lauda-Königshofen, Germany) were used. .. Neurons were imaged with an inverted STED microscope (Expert Line, Abberior Instruments, Göttingen, Germany). .. For high-resolution imaging, a 100× silicone oil immersion objective (UPLSAPO100XS, Olympus Germany, Hamburg, Germany) was used with a voxel size of Neurophotonics 015001-9 Jan–Mar 2025 • Vol.

    Article Title: Oligodendrocyte precursor cells facilitate neuronal lysosome release
    Article Snippet: .. Imaging was performed on an inverted STED Microscope (Expert Line, Abberior Instruments, Göttingen, Germany) using 488 nm, 561 nm, and 640 nm pulsed excitation lasers with respective detections at 498–520 nm, 605–625 nm, and 650–720 nm. .. Brain slices were visualized with a 100x silicone oil immersion objective (NA 1.4, UPLSAPO100XS, Olympus, Hamburg, Germany).

    Article Title: Advantages of Acute Brain Slices Prepared at Physiological Temperature in the Characterization of Synaptic Functions
    Article Snippet: The slices were washed three times with PBS, transferred on the slide, covered with mounting medium (Abberior Mount Liquid Antifade) using coverslip (#1.5) and sealed with nail polish. .. STED microscopy of tissue volumes with resolution increase in all three spatial dimension was performed on a commercial inverted STED microscope (Expert Line, Abberior Instruments, Germany) with pulsed excitation and STED lasers. ..

    Imaging:

    Article Title: Oligodendrocyte precursor cells facilitate neuronal lysosome release
    Article Snippet: .. Imaging was performed on an inverted STED Microscope (Expert Line, Abberior Instruments, Göttingen, Germany) using 488 nm, 561 nm, and 640 nm pulsed excitation lasers with respective detections at 498–520 nm, 605–625 nm, and 650–720 nm. .. Brain slices were visualized with a 100x silicone oil immersion objective (NA 1.4, UPLSAPO100XS, Olympus, Hamburg, Germany).



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    inverted sted microscope expert line  (abberior instruments)
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    abberior instruments inverted sted microscope expert line
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    Cortical neurons. (a)–(d) Confocal overview images of the perisomatic region of the neurons filled with markers in the mouse cortex (maximum-intensity projections). Letters and yellow markings identify the individual dendrites, which were then imaged with <t>STED</t> microscopy [inset in panel (d)], eventually also beyond the field of view shown here. Individual neurons were filled with biocytin and revealed with the streptavidin-coupled fluorophore Atto 647N. Scale bars, 50 μ m and 5 μ m in the inset. (e) and (f) Segmentation of individual spines from two dendrites of the same neuron highlights differences (maximum-intensity projections shown). Scale bars, 2 μ m .
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    a , Representative TIRF micrographs of Alexa488-FtsZ at increasing FtsZ and constant FtsA concentrations. Below 0.625 µM FtsZ, filaments do not form higher-order structures. At 1.25 and 1.50 µM, FtsZ forms rotating rings and directionally moving filament bundles (see red squares). This organization is lost at concentrations above 3 µM FtsZ, at which filaments densely cover the membrane surface. The micrographs are representatives of at least four independent experiments ( n = 4, 6, 8, 5 and 4 for [FtsZ] = 0.625, 1.25, 1.5, 3.0 and 5.0 µM, respectively). b , Representative images of a trajectory of a single FtsZ filament at 0.5 µM (left) and distributions of measured curvatures. The filament moves along a curved path, corresponding to an apparent diameter of 1.15 ± 0.35 µm (mean ± standard deviation, n = 105 trajectories from five independent experiments). c , Decay constants from fitting a biexponential function to directional autocorrelation curves from treadmilling trajectories. For intermediate concentrations, the best match is obtained by assuming a fast and slow decay constant ( n = 4, 4, 6, 8, 4, 4 and 5 for [FtsZ] = 0.625, 0.900, 1.25, 1.50, 2.0, 3.0 and 5.0 µM, respectively; Extended Data Fig. ). d , Representative <t>STED</t> micrographs of 1.5 µM Atto633-FtsZ tethered to SLBs by 0.2 µM FtsA at low (5 min after starting the experiment (top)) and high (50 min (bottom)) densities. First, rotating rings and moving bundles coexisted on the membrane surface. With increasing filament density, the ring-like structures disappear.
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    inverted sted microscope abberior instruments expert line  (abberior instruments)
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    a , Representative TIRF micrographs of Alexa488-FtsZ at increasing FtsZ and constant FtsA concentrations. Below 0.625 µM FtsZ, filaments do not form higher-order structures. At 1.25 and 1.50 µM, FtsZ forms rotating rings and directionally moving filament bundles (see red squares). This organization is lost at concentrations above 3 µM FtsZ, at which filaments densely cover the membrane surface. The micrographs are representatives of at least four independent experiments ( n = 4, 6, 8, 5 and 4 for [FtsZ] = 0.625, 1.25, 1.5, 3.0 and 5.0 µM, respectively). b , Representative images of a trajectory of a single FtsZ filament at 0.5 µM (left) and distributions of measured curvatures. The filament moves along a curved path, corresponding to an apparent diameter of 1.15 ± 0.35 µm (mean ± standard deviation, n = 105 trajectories from five independent experiments). c , Decay constants from fitting a biexponential function to directional autocorrelation curves from treadmilling trajectories. For intermediate concentrations, the best match is obtained by assuming a fast and slow decay constant ( n = 4, 4, 6, 8, 4, 4 and 5 for [FtsZ] = 0.625, 0.900, 1.25, 1.50, 2.0, 3.0 and 5.0 µM, respectively; Extended Data Fig. ). d , Representative <t>STED</t> micrographs of 1.5 µM Atto633-FtsZ tethered to SLBs by 0.2 µM FtsA at low (5 min after starting the experiment (top)) and high (50 min (bottom)) densities. First, rotating rings and moving bundles coexisted on the membrane surface. With increasing filament density, the ring-like structures disappear.
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    Confocal and <t>STED</t> imaging using an Abberior STED inverted <t>microscope</t> (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).
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    Confocal and <t>STED</t> imaging using an Abberior STED inverted <t>microscope</t> (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).
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    Image Search Results


    Cortical neurons. (a)–(d) Confocal overview images of the perisomatic region of the neurons filled with markers in the mouse cortex (maximum-intensity projections). Letters and yellow markings identify the individual dendrites, which were then imaged with STED microscopy [inset in panel (d)], eventually also beyond the field of view shown here. Individual neurons were filled with biocytin and revealed with the streptavidin-coupled fluorophore Atto 647N. Scale bars, 50 μ m and 5 μ m in the inset. (e) and (f) Segmentation of individual spines from two dendrites of the same neuron highlights differences (maximum-intensity projections shown). Scale bars, 2 μ m .

    Journal: Neurophotonics

    Article Title: Distribution of spine classes shows intra-neuronal dendritic heterogeneity in mouse cortex

    doi: 10.1117/1.NPh.12.1.015001

    Figure Lengend Snippet: Cortical neurons. (a)–(d) Confocal overview images of the perisomatic region of the neurons filled with markers in the mouse cortex (maximum-intensity projections). Letters and yellow markings identify the individual dendrites, which were then imaged with STED microscopy [inset in panel (d)], eventually also beyond the field of view shown here. Individual neurons were filled with biocytin and revealed with the streptavidin-coupled fluorophore Atto 647N. Scale bars, 50 μ m and 5 μ m in the inset. (e) and (f) Segmentation of individual spines from two dendrites of the same neuron highlights differences (maximum-intensity projections shown). Scale bars, 2 μ m .

    Article Snippet: Neurons were imaged with an inverted STED microscope (Expert Line, Abberior Instruments, Göttingen, Germany).

    Techniques: Microscopy

    a , Representative TIRF micrographs of Alexa488-FtsZ at increasing FtsZ and constant FtsA concentrations. Below 0.625 µM FtsZ, filaments do not form higher-order structures. At 1.25 and 1.50 µM, FtsZ forms rotating rings and directionally moving filament bundles (see red squares). This organization is lost at concentrations above 3 µM FtsZ, at which filaments densely cover the membrane surface. The micrographs are representatives of at least four independent experiments ( n = 4, 6, 8, 5 and 4 for [FtsZ] = 0.625, 1.25, 1.5, 3.0 and 5.0 µM, respectively). b , Representative images of a trajectory of a single FtsZ filament at 0.5 µM (left) and distributions of measured curvatures. The filament moves along a curved path, corresponding to an apparent diameter of 1.15 ± 0.35 µm (mean ± standard deviation, n = 105 trajectories from five independent experiments). c , Decay constants from fitting a biexponential function to directional autocorrelation curves from treadmilling trajectories. For intermediate concentrations, the best match is obtained by assuming a fast and slow decay constant ( n = 4, 4, 6, 8, 4, 4 and 5 for [FtsZ] = 0.625, 0.900, 1.25, 1.50, 2.0, 3.0 and 5.0 µM, respectively; Extended Data Fig. ). d , Representative STED micrographs of 1.5 µM Atto633-FtsZ tethered to SLBs by 0.2 µM FtsA at low (5 min after starting the experiment (top)) and high (50 min (bottom)) densities. First, rotating rings and moving bundles coexisted on the membrane surface. With increasing filament density, the ring-like structures disappear.

    Journal: Nature Physics

    Article Title: Chiral and nematic phases of flexible active filaments

    doi: 10.1038/s41567-023-02218-w

    Figure Lengend Snippet: a , Representative TIRF micrographs of Alexa488-FtsZ at increasing FtsZ and constant FtsA concentrations. Below 0.625 µM FtsZ, filaments do not form higher-order structures. At 1.25 and 1.50 µM, FtsZ forms rotating rings and directionally moving filament bundles (see red squares). This organization is lost at concentrations above 3 µM FtsZ, at which filaments densely cover the membrane surface. The micrographs are representatives of at least four independent experiments ( n = 4, 6, 8, 5 and 4 for [FtsZ] = 0.625, 1.25, 1.5, 3.0 and 5.0 µM, respectively). b , Representative images of a trajectory of a single FtsZ filament at 0.5 µM (left) and distributions of measured curvatures. The filament moves along a curved path, corresponding to an apparent diameter of 1.15 ± 0.35 µm (mean ± standard deviation, n = 105 trajectories from five independent experiments). c , Decay constants from fitting a biexponential function to directional autocorrelation curves from treadmilling trajectories. For intermediate concentrations, the best match is obtained by assuming a fast and slow decay constant ( n = 4, 4, 6, 8, 4, 4 and 5 for [FtsZ] = 0.625, 0.900, 1.25, 1.50, 2.0, 3.0 and 5.0 µM, respectively; Extended Data Fig. ). d , Representative STED micrographs of 1.5 µM Atto633-FtsZ tethered to SLBs by 0.2 µM FtsA at low (5 min after starting the experiment (top)) and high (50 min (bottom)) densities. First, rotating rings and moving bundles coexisted on the membrane surface. With increasing filament density, the ring-like structures disappear.

    Article Snippet: STED microscopy was performed at room temperature on an inverted Expert Line STED microscope (Abberior Instruments) with pulsed excitation and STED lasers.

    Techniques: Membrane, Standard Deviation

    a , Representative micrographs of STED time-lapse experiments of Atto633-FtsZ WT. The insets show either rings which dynamically re-arrange into bundles (red) or bundles, which re-arrange into rings (orange). Scale bars are 1 µm. b , Model drawings showing the different types of collisions FtsZ filaments can undergo. In the aftermath of collision events FtsZ filaments align either parallel or antiparallel. c , Probability of parallel and antiparallel alignment as a function of collision angle. 151 collision events in 6 independent experiments were quantified.

    Journal: Nature Physics

    Article Title: Chiral and nematic phases of flexible active filaments

    doi: 10.1038/s41567-023-02218-w

    Figure Lengend Snippet: a , Representative micrographs of STED time-lapse experiments of Atto633-FtsZ WT. The insets show either rings which dynamically re-arrange into bundles (red) or bundles, which re-arrange into rings (orange). Scale bars are 1 µm. b , Model drawings showing the different types of collisions FtsZ filaments can undergo. In the aftermath of collision events FtsZ filaments align either parallel or antiparallel. c , Probability of parallel and antiparallel alignment as a function of collision angle. 151 collision events in 6 independent experiments were quantified.

    Article Snippet: STED microscopy was performed at room temperature on an inverted Expert Line STED microscope (Abberior Instruments) with pulsed excitation and STED lasers.

    Techniques:

    Confocal and STED imaging using an Abberior STED inverted microscope (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Confocal and STED imaging using an Abberior STED inverted microscope (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Imaging, Inverted Microscopy, Selection

    Semiautomated detection of functional zones (PSD) of an excitatory synapse using MetaMorph software (A and C) STED PSD95 image and a corresponding binary IMA object mask with regions created around objects segmented as PSD regions using IMA. The filtered PSDs are marked in green while the region boundaries are shown in yellow. (B and D) The IMA and thresholding parameters employed for filtering PSDs from STED PSD95 image as a source image.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Semiautomated detection of functional zones (PSD) of an excitatory synapse using MetaMorph software (A and C) STED PSD95 image and a corresponding binary IMA object mask with regions created around objects segmented as PSD regions using IMA. The filtered PSDs are marked in green while the region boundaries are shown in yellow. (B and D) The IMA and thresholding parameters employed for filtering PSDs from STED PSD95 image as a source image.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Functional Assay, Software

    Detection of nanodomains of protein of interest in MetaMorph software (A) Super resolved image of protein of interest (APP) loaded in MetaMorph software. (B) Contrast inverted STED APP image in pseudocolor display mode. Intensity is pseudocolor coded from white (minimum) to black (maximum). (C) A magnified view of a ROI from (B). Arrows indicate domains of APP clustering to indicate region with high fluorescence intensity.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Detection of nanodomains of protein of interest in MetaMorph software (A) Super resolved image of protein of interest (APP) loaded in MetaMorph software. (B) Contrast inverted STED APP image in pseudocolor display mode. Intensity is pseudocolor coded from white (minimum) to black (maximum). (C) A magnified view of a ROI from (B). Arrows indicate domains of APP clustering to indicate region with high fluorescence intensity.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Software, Fluorescence

    Super resolution cluster analysis of a protein of interest in synaptic sub compartments in PALMTracer plugin supported by MetaMorph software (A and B) Steps to open PALMTracer plugin running inside MetaMorph software. (C) Data and options tab of PALMTracer showing the parameters employed for cluster analysis. (D) Super resolution image of a protein of interest (STED APP) opened in MetaMorph loaded with regions from STED PSD95 image. The boundaries of the regions are indicated in yellow color. (E and F) Filtering and special tab of PALMTracer showing the parameters employed for cluster analysis.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Super resolution cluster analysis of a protein of interest in synaptic sub compartments in PALMTracer plugin supported by MetaMorph software (A and B) Steps to open PALMTracer plugin running inside MetaMorph software. (C) Data and options tab of PALMTracer showing the parameters employed for cluster analysis. (D) Super resolution image of a protein of interest (STED APP) opened in MetaMorph loaded with regions from STED PSD95 image. The boundaries of the regions are indicated in yellow color. (E and F) Filtering and special tab of PALMTracer showing the parameters employed for cluster analysis.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Software

    Comparison of conventional and super resolution image of APP (A) The fluorescence image of APP obtained using conventional confocal microscopy. (B) The super resolution image of APP obtained using super resolution STED microscopy. The scale bar at (A and B) indicate 5 μm.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Comparison of conventional and super resolution image of APP (A) The fluorescence image of APP obtained using conventional confocal microscopy. (B) The super resolution image of APP obtained using super resolution STED microscopy. The scale bar at (A and B) indicate 5 μm.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Comparison, Fluorescence, Confocal Microscopy, Microscopy

    Nanoscale distribution of APP in the postsynaptic density using super resolution microscopy (A) Pseudocolor image of APP obtained using STED microscopy. The intensity is color coded from white (minimum) to black (maximum) with black contours representing the PSD regions from STED PSD95 image. (B) STED image with pseudocolor overlay of PSD95 (red) and APP (green) with white contours representing the PSD regions. (C and D) Magnified insets of the regions indicated as 1, 2 and 3 in (A and B). All the images are scaled from 0 (minimum) to 200 (maximum). The scale bar at (A and B) indicate 4 μm and at (C) indicates 600 nm. (E–H) Indicate the length, width, area, and intensity of APP nanodomains in PSD regions. n= 70 nanodomains.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Nanoscale distribution of APP in the postsynaptic density using super resolution microscopy (A) Pseudocolor image of APP obtained using STED microscopy. The intensity is color coded from white (minimum) to black (maximum) with black contours representing the PSD regions from STED PSD95 image. (B) STED image with pseudocolor overlay of PSD95 (red) and APP (green) with white contours representing the PSD regions. (C and D) Magnified insets of the regions indicated as 1, 2 and 3 in (A and B). All the images are scaled from 0 (minimum) to 200 (maximum). The scale bar at (A and B) indicate 4 μm and at (C) indicates 600 nm. (E–H) Indicate the length, width, area, and intensity of APP nanodomains in PSD regions. n= 70 nanodomains.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Super-Resolution Microscopy, Microscopy

    Troubleshooting PALMTracer super resolution cluster analysis (A–C) Pseudocolor image of APP obtained using STED microscopy loaded in MetaMorph software. The intensity is color coded from white (minimum) to black (maximum). (D–F) Different ROI sizes opted for the Gaussian fitting of the clusters in the special tab of PALMTracer plugin supported by MetaMorph software. The ROI size in (D) is 14, in (E) is 2 and in (F) is 7. The ROIs are indicated by black contours in (A–C). (G and H) Pseudocolor STED image of a protein of interest with an image depth of 8 bits loaded in the MetaMorph software and analyzed for clusters through PALMTracer plugin. The detected nanodomain regions are indicated in black. (I) Error message by PALMTracer during super resolution cluster analysis.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Troubleshooting PALMTracer super resolution cluster analysis (A–C) Pseudocolor image of APP obtained using STED microscopy loaded in MetaMorph software. The intensity is color coded from white (minimum) to black (maximum). (D–F) Different ROI sizes opted for the Gaussian fitting of the clusters in the special tab of PALMTracer plugin supported by MetaMorph software. The ROI size in (D) is 14, in (E) is 2 and in (F) is 7. The ROIs are indicated by black contours in (A–C). (G and H) Pseudocolor STED image of a protein of interest with an image depth of 8 bits loaded in the MetaMorph software and analyzed for clusters through PALMTracer plugin. The detected nanodomain regions are indicated in black. (I) Error message by PALMTracer during super resolution cluster analysis.

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Microscopy, Software

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet:

    Article Snippet: CRITICAL: For STED imaging with STED inverted microscope (Abberior Expert Line 775 nm, Abberior Instruments GmbH, Göttingen, Germany), we have tested the suitability of Alexa Fluor 594, Alexa Fluor 555 and Abberior star red dyes.

    Techniques: Recombinant, Software, Cell Culture, Inverted Microscopy

    Confocal and STED imaging using an Abberior STED inverted microscope (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Confocal and STED imaging using an Abberior STED inverted microscope (A) ROI selection for imaging. (B) Confocal and STED image acquisition for APP (Alexa fluor 594) and PSD95 (Abberior star red dye). (C) A display of parameters used for imaging. (D) Magnified inset of the region indicated in (C).

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Imaging, Inverted Microscopy, Selection

    Semiautomated detection of functional zones (PSD) of an excitatory synapse using MetaMorph software (A and C) STED PSD95 image and a corresponding binary IMA object mask with regions created around objects segmented as PSD regions using IMA. The filtered PSDs are marked in green while the region boundaries are shown in yellow. (B and D) The IMA and thresholding parameters employed for filtering PSDs from STED PSD95 image as a source image.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Semiautomated detection of functional zones (PSD) of an excitatory synapse using MetaMorph software (A and C) STED PSD95 image and a corresponding binary IMA object mask with regions created around objects segmented as PSD regions using IMA. The filtered PSDs are marked in green while the region boundaries are shown in yellow. (B and D) The IMA and thresholding parameters employed for filtering PSDs from STED PSD95 image as a source image.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Functional Assay, Software

    Detection of nanodomains of protein of interest in MetaMorph software (A) Super resolved image of protein of interest (APP) loaded in MetaMorph software. (B) Contrast inverted STED APP image in pseudocolor display mode. Intensity is pseudocolor coded from white (minimum) to black (maximum). (C) A magnified view of a ROI from (B). Arrows indicate domains of APP clustering to indicate region with high fluorescence intensity.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Detection of nanodomains of protein of interest in MetaMorph software (A) Super resolved image of protein of interest (APP) loaded in MetaMorph software. (B) Contrast inverted STED APP image in pseudocolor display mode. Intensity is pseudocolor coded from white (minimum) to black (maximum). (C) A magnified view of a ROI from (B). Arrows indicate domains of APP clustering to indicate region with high fluorescence intensity.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Software, Fluorescence

    Super resolution cluster analysis of a protein of interest in synaptic sub compartments in PALMTracer plugin supported by MetaMorph software (A and B) Steps to open PALMTracer plugin running inside MetaMorph software. (C) Data and options tab of PALMTracer showing the parameters employed for cluster analysis. (D) Super resolution image of a protein of interest (STED APP) opened in MetaMorph loaded with regions from STED PSD95 image. The boundaries of the regions are indicated in yellow color. (E and F) Filtering and special tab of PALMTracer showing the parameters employed for cluster analysis.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Super resolution cluster analysis of a protein of interest in synaptic sub compartments in PALMTracer plugin supported by MetaMorph software (A and B) Steps to open PALMTracer plugin running inside MetaMorph software. (C) Data and options tab of PALMTracer showing the parameters employed for cluster analysis. (D) Super resolution image of a protein of interest (STED APP) opened in MetaMorph loaded with regions from STED PSD95 image. The boundaries of the regions are indicated in yellow color. (E and F) Filtering and special tab of PALMTracer showing the parameters employed for cluster analysis.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Software

    Comparison of conventional and super resolution image of APP (A) The fluorescence image of APP obtained using conventional confocal microscopy. (B) The super resolution image of APP obtained using super resolution STED microscopy. The scale bar at (A and B) indicate 5 μm.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Comparison of conventional and super resolution image of APP (A) The fluorescence image of APP obtained using conventional confocal microscopy. (B) The super resolution image of APP obtained using super resolution STED microscopy. The scale bar at (A and B) indicate 5 μm.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Comparison, Fluorescence, Confocal Microscopy, Microscopy

    Nanoscale distribution of APP in the postsynaptic density using super resolution microscopy (A) Pseudocolor image of APP obtained using STED microscopy. The intensity is color coded from white (minimum) to black (maximum) with black contours representing the PSD regions from STED PSD95 image. (B) STED image with pseudocolor overlay of PSD95 (red) and APP (green) with white contours representing the PSD regions. (C and D) Magnified insets of the regions indicated as 1, 2 and 3 in (A and B). All the images are scaled from 0 (minimum) to 200 (maximum). The scale bar at (A and B) indicate 4 μm and at (C) indicates 600 nm. (E–H) Indicate the length, width, area, and intensity of APP nanodomains in PSD regions. n= 70 nanodomains.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Nanoscale distribution of APP in the postsynaptic density using super resolution microscopy (A) Pseudocolor image of APP obtained using STED microscopy. The intensity is color coded from white (minimum) to black (maximum) with black contours representing the PSD regions from STED PSD95 image. (B) STED image with pseudocolor overlay of PSD95 (red) and APP (green) with white contours representing the PSD regions. (C and D) Magnified insets of the regions indicated as 1, 2 and 3 in (A and B). All the images are scaled from 0 (minimum) to 200 (maximum). The scale bar at (A and B) indicate 4 μm and at (C) indicates 600 nm. (E–H) Indicate the length, width, area, and intensity of APP nanodomains in PSD regions. n= 70 nanodomains.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Super-Resolution Microscopy, Microscopy

    Troubleshooting PALMTracer super resolution cluster analysis (A–C) Pseudocolor image of APP obtained using STED microscopy loaded in MetaMorph software. The intensity is color coded from white (minimum) to black (maximum). (D–F) Different ROI sizes opted for the Gaussian fitting of the clusters in the special tab of PALMTracer plugin supported by MetaMorph software. The ROI size in (D) is 14, in (E) is 2 and in (F) is 7. The ROIs are indicated by black contours in (A–C). (G and H) Pseudocolor STED image of a protein of interest with an image depth of 8 bits loaded in the MetaMorph software and analyzed for clusters through PALMTracer plugin. The detected nanodomain regions are indicated in black. (I) Error message by PALMTracer during super resolution cluster analysis.

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet: Troubleshooting PALMTracer super resolution cluster analysis (A–C) Pseudocolor image of APP obtained using STED microscopy loaded in MetaMorph software. The intensity is color coded from white (minimum) to black (maximum). (D–F) Different ROI sizes opted for the Gaussian fitting of the clusters in the special tab of PALMTracer plugin supported by MetaMorph software. The ROI size in (D) is 14, in (E) is 2 and in (F) is 7. The ROIs are indicated by black contours in (A–C). (G and H) Pseudocolor STED image of a protein of interest with an image depth of 8 bits loaded in the MetaMorph software and analyzed for clusters through PALMTracer plugin. The detected nanodomain regions are indicated in black. (I) Error message by PALMTracer during super resolution cluster analysis.

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Microscopy, Software

    Journal: STAR Protocols

    Article Title: Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons

    doi: 10.1016/j.xpro.2021.100470

    Figure Lengend Snippet:

    Article Snippet: STED inverted microscope (expert line 775 nm) , Abberior , https://abberior-instruments.com/.

    Techniques: Recombinant, Software, Cell Culture, Inverted Microscopy