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Electron microscopy 101

Hello and welcome, this is our interactive hands on course Electron Microscopy 101.

We are using the interactive Open Educational Resource online/offline course infrastructure called LiaScript. It is a distributed way of creating and sharing educational content hosted on github.

The source for this course can be found here.


About VIB and VIB Technologies

VIB is an entrepreneurial non-profit research institute, with a clear focus on groundbreaking strategic basic research in life sciences and operates in close partnership with the five universities in Flanders – Ghent University, KU Leuven, University of Antwerp, Vrije Universiteit Brussel and Hasselt University.

As part of the VIB Technologies, the 12 VIB Core Facilities, provide support in a wide array of research fields and housing specialized scientific equipment for each discipline. Science and technology go hand in hand. New technologies advance science and often accelerate breakthroughs in scientific research. VIB has a visionary approach to science and technology, founded on its ability to identify and foster new innovations in life sciences.

The goal of the VIB Bio Imaging Core is to support imaging from in vitro to in vivo, from the meso to the Ångström scale, and from morphology to mechanism. It is our mission to facilitate science and provide access to know-how and measurement time on state-of-the-art microscopes. We have ample solutions available, including confocal microscopes, slide scanning, high content screening, and 3D whole organ imaging. We take pride in our support for image analysis both with infrastructure and expertise in light and electron microscopy.


Editorial team for this course

Authors: Anneke Kremer

Technical Editors: Alexander Botzki

License: CC-BY

Seeing is believing

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From Angstrom to centimeters

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The limit of imaging with photons

The resolution of a light microscope mostly depends on the wavelength of the light

-> Best resolution, in an ideal set-up = 187nm

-> Super-resolution methods can improve this up to 50nm

BUT: due to the use of fluorescence, in LM only labeled structures are visible. The context is missing.

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The limit of imaging with photons

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Photons versus electrons

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| images | images |

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Gadus morhua

Familie: Gadidae

Ordnung: Gadiformes

Karte Verbreitungsgebiet

Verbreitung: Gesamte Ostsee, außer im nördlichen Bottnischen Meerbusen.

Häufigkeit: sehr häufig

Gefährdung: nicht gefährdet images

        <!-- style="width: 50%; min-width: 400px; color: red; font-size:20px" border: 0px-->
Header 1 Header 2
Item 1 Item 2
Item 3 Item 4

All matter has wave properties

-> electrons, like photons, can be used for imaging

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-> resolution is Angstrom

Anatomy of an electron microscope

Gallery

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images

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Transmission Electron Microscopy

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TEM: electron beam is sent through a thin section of the sample and signal is detected where electrons are deflected from their path by interaction with the sample

Thickness of sections: 50-90nm Resolution: Å

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TEM – examples

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Scanning Electron Microscopy

SEM: Electron beam scans the surface of the samples and signal is detected by how the electrons are reflected from the sample

To improve conductivity of samples, a thin layer of Gold or Platinum is deposited on the surface

Resolution: nm

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SEM – examples

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EM @ VIB

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Both systems are equipped for volume-EM

Life in 3 dimensions…

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Block-face SEM

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SBF-SEM & FIB-SEM

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SBF-SEM

!?Introduciton

!?Introduciton

Minimal section thickness: 50nm

Minimal pixel size: 5nm

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FIB-SEM

!?FIB intro

Minimal section thickness: 5nm

Minimal pixel size: 5nm

!?Depth 30 um

!?Brain nucleus

Extensions

 --{{0}}--

But you can also include other features such as spoken text.

  --{{1}}--

Insert any kind of audio file:

   {{1}}

?audio

 --{{2}}--

Even videos or change the language completely.

   {{2-3}}

!?video

  --{{3 Russian Female}}--

Первоначально создан в 2004 году Джоном Грубером (англ. John Gruber) и Аароном Шварцем. Многие идеи языка были позаимствованы из существующих соглашений по разметке текста в электронных письмах...

{{3}}

Type "voice" to see a list of all available languages.

Styling

The whole text-block should appear in purple color and with a wobbling effect. Which is a bad example, please use it with caution ... ~~ only this is red ;-) ~~

Quizzes

A Textquiz

What did the fish say when he hit a concrete wall?

[[dam]]

Multiple Choice

Just add as many points as you wish:

[[X]] Only the **X** marks the correct point.
[[ ]] Empty ones are wrong.
[[X]] ...

Single Choice

Just add as many points as you wish:

[( )] ...
[(X)] <-- Only the **X** is allowed.
[( )] ...

More

Find out what you can even do more with quizzes:

https://liascript.github.io/course/?https://raw.githubusercontent.com/liaScript/docs/master/README.md