LabAdviser/314/Preparation 314-307/Soft-matter: Difference between revisions
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The mini-tube rotator is designed for rotating various sized laboratory tubes at a variety of mixing angles at speeds ranging from 4 to 18 min–1. Ideal for mixing and separation processes involved in molecular biology, histochemistry and clinical applications. | The mini-tube rotator is designed for rotating various sized laboratory tubes at a variety of mixing angles at speeds ranging from 4 to 18 min–1. Ideal for mixing and separation processes involved in molecular biology, histochemistry and clinical applications. | ||
* Variable speed with LCD display | * Variable speed with LCD display | ||
Revision as of 13:46, 21 July 2021
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Plunge Freezer
Leica EM GP2
Plunge freezing is a cryo-fixation method used to preserve samples in their most native state prior to cryo-electron microscopy. The EM GP2 plunge freezes fluid or extremely thin samples spread on an electron microscopy grid into liquid ethane after removing excess fluid by automatic blotting. Prior to freezing, the sample is maintained in a temperature and humidity controlled environmental chamber, adjustable between +4°C and +60°C and room humidity to 99 %.
The main steps of this technique proceed as follows:
1. The sample is spread into a thin film across an EM grid
2. The liquid droplet is then blotted with filter paper until only a very thin film of fluid remains
3. The grid is then rapidly plunged into a cryogen (usually liquid ethane)
4. The grid is afterwards stored in a grid box submerged in liquid nitrogen until finally loaded into the cryo-electron microscope for imaging
Operating manual: File:Leica EM GP2 Operating manual.pdf
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For further information on the equipment usage or training contact mktracy@dtu.dk [1].
Microtome
RMC MT-7 Microtome
Our RMC MT-7 Microtome is a vintage piece of equipment and can be used for planning specimens for SEM/EDX and/or for cutting relative thin slices (approx. 200nm thick) for TEM. First, the specimen needs to be embedded into a resin or an epoxy, and then can be sliced with a glass or diamond knife.
For further information about the microtome usage contact mktracy@dtu.dk [2].
Leica EM UC7 Ultramicrotome
The Ultramicrotome Leica EM UC7 provides easy preparation of semi- and ultrathin sections as well as perfect, smooth surfaces of biological and industrial samples for TEM, SEM, AFM and LM examination. Combining ergonomic design and innovative technology the Ultramicrotome Leica EM UC7 sets new standards in Ultramicrotomy. It offers a range of outstanding features and benefits of use for the ultramicrotomist, whether highly skilled or absolute beginners.
The Leica ultramicrotome is used for ultra thin sectioning of sample embedded in resin block with a feed range of 1 nm up to 15 µm. Glass or diamond knife can be used for the ultra sectioning of the samples.
The main steps of this technique proceed as follows:
1. Mount sample
2. Mount glass or diamond knife to knife holder
3. Trimming and ultrasectioning of sample
4. Fishing sections
5. Transfer to an EM grid
6. EM imaging
Operating manual: File:EM UC7 Operating manual.pdf
For further information about the equipment usage or training contact mktracy@dtu.dk [3].
Leica EM FC7 Cryo-Ultramicrotome
Within minutes the Leica EM UC7 ultramicrotome can change to a cryo-ultramicrotome by mounting the cryo chamber EM FC7. Cryo-sections (-15° to -185°C) can be prepared for TEM, SEM, AFM and LM.
The main steps of this technique proceed as follows:
1. Set up the cryo chamber EM FC7 to the EM UC7 apparatus
2. Mount both the trim and sectioning diamond knives to the knive holder and set up in the cryo chamber
3. Fill up liquid nitrogen Dewar
4. Set pump between the liquid nitrogen Dewar and the ultramicrotome apparatus
5. Let equipment to cool down for 1 hour
6. Meanwhile prepare samples
7. Mount sample
8. Trimming and ultrasectioning of sample
9. Collecting sections and transfer to an EM grid
Operating manual: File:EM FC7 Operating manual.pdf
For further information about the equipment usage or training contact mktracy@dtu.dk [4].
KnifeMaker
LKB Knifemaker 7801A
At DTU Nanolab we offer the possibility to make glass knives using the LKB Knifemaker 7801A.
Manual of LKB Knifemaker 7801A: File:LKB Knifemaker 7800B Manual.pdf
For further information about the knifemaker usage and training contact mktracy@dtu.dk [5].
Critical point dryer
Leica EM CPD300
The CPD is used to preserve the sample’s morphology. Since air drying would cause severe deformation and collapse of structure due to the effects of high surface tension to air, the water in the biological specimen is replaced with a suitable inert fluid (“transitional fluid”-CO2) which has a lower surface tension to air. This would thus reduce severe structural damages during air-drying.
Because liquid CO2 is not sufficiently miscible with water, a third medium commonly Acetone or Ethanol is used as “intermediate fluid”. The specimen is first dehydrated through varying concentrations of the intermediate fluid and thus completely replacing the water in the specimen. Afterwards, the “intermediate fluid” is replaced with the “transitional fluid” (CO2) which can then convert from liquid to gas phase without surface tension effects which distort morphology and ultra-structure.
Operating manual: File:EM CPD300 Operating manual.pdf
For further information on the CPD usage or training contact mktracy@dtu.dk [6].
Drying oven
The TS9026 drying oven is of 26L capacity and is used for epoxy embedding experiments.
For further information on the equipment usage contact mktracy@dtu.dk [7].
Sonic Dismembrator
The Fisherbrand Model 505 sonic dismembrator apparatus applies sound energy to agitate particles in a sample. In biological applications, sonication may be sufficient to disrupt or deactivate a biological material. For example, sonication is often used to disrupt cell membranes and release cellular contents. In nanotechnology sonication is commonly used for evenly dispersing nanoparticles in liquids.
For further information on the equipment usage contact mktracy@dtu.dk [8].
Preparation equipment
Mini tube rotator
The mini-tube rotator is designed for rotating various sized laboratory tubes at a variety of mixing angles at speeds ranging from 4 to 18 min–1. Ideal for mixing and separation processes involved in molecular biology, histochemistry and clinical applications.
- Variable speed with LCD display
- Digital microprocessor control
- An adjustable 0 – 90° mixing angle
- Interchangeable carousels for all common laboratory tubes
- Cold room and incubator compatible
For further information on the equipment usage contact mktracy@dtu.dk [9].
Centrifuge
The Eppendorf Mini Spin plus centrifuge is a desktop centrifuge with supplied rotor with maximum speed/force 13,400rpm/12,100xG. It has a 30-minute timer, which is settable in 15-sec increments. It has a short-spin mode fixed at maximum speed. The Mini Spinner Eppendorf is located in building 314, in the Soft Mater (toxic) Lab.
Instruction manual: File:Eppendorf Mini Spin plus centrifuge_Original Instructions.pdf
For further information on the equipment usage contact mktracy@dtu.dk [10].
Magnetic stirrer
The myPlate magnetic stirrer has similar technical features to the popular colour squid and big squid magnetic stirrers together with the option of creative individualisation. The speed range (min-1) is 100 - 2500.
- High chemical resistance
- Electronically controlled motor
- Interchangeable frame for customisation
- Proven high functionality
- Digital speed indicator
- Can be used at 5 to 40 °C (80% relative humidity), in an incubator or cold room
- Speed range (min-1) 100 to 2500
For further information on the equipment usage contact mktracy@dtu.dk [11].
Pulsing Vortex Mixer
VWR pulsing vortex mixer with features to suit different applications. The vortex mixer provide optimum comfort and minimal stress.
- Can be used at 4 to 40 °C (maximum 85% relative humidity, non condensing), in an incubator, CO₂ incubator or cold room
- Pulsing model has unique action which reduces heat generation and ensures efficient mixing and disruption
- Digital and pulsing units have timer, 1 s to 160 h
Instruction manual: File:VWR pulsing vortex mixer_Instruction Manual.pdf
For further information on the equipment usage contact mktracy@dtu.dk [12].
Magnetic hotplate stirrer
VWR Professional hotplate stirrers are designed for applications that require exceptional accuracy, stability and repeatability. Enhanced microprocessor control offers an external resistance thermometer (RTD) probe option that delivers superior temperature control of the sample. Stirring function, with continuous duty motor and powerful magnet, maintains set speed even under changing load or viscosity. Touch pad controls with easy to read, independent LED displays for temperature, speed and time, allow operator to view all settings at once. Rear housing features a built-in support rod holder with locking knob that accepts the supplied probe kit.
- Excellent temperature uniformity with consistent stirring at all speeds
- Separate digital displays for temperature, speed and time; show set and actual values. Display will show last used settings, even after power has been turned off
- Cool touch, chemically resistant housing
- Includes external RTD temperature probe kit
- Temperature range (°C) +5 to 400
- Speed range (min-1) 60 to 1600
Low profile design takes up less space and fits into fume hoods. Spill resistant housing channels fluids away from internal components. A 'hot' symbol warning light is illuminated when heat is turned on and remains on until top plate cools down. Stir protection; if stirrer motor stops or fails, unit will automatically shut down heater. Plate over-temperature limit ensures plate temperature will never exceed users programmed set temperature limit, allowing for control of sensitive flash points. An audible alarm will sound when time reaches zero or when unit reaches set point temperature in timed mode, and if the probe disengages from sample, unit will automatically shut off heater. Microprocessor control with enhanced electronics regulates both heating and stirring and brings samples to temperature quickly and efficiently. Ramping feature slowly increases speed for improved safety and enhanced coupling. Avoids splashing, improves spin bar control and provides excellent low end speed control. Durable aluminium tops will not crack or chip, and provide a more even heating surface.
For further information on the equipment usage contact mktracy@dtu.dk [13].
Hotplate
VWR Hotplate W10 is suitable for drying paraffin sections on slides or for de-icing tools when doing cryo experiments. The W10 heating plate, with its sleek compact design, accommodates two rows of up to 40 slides in total. The heating plate is very useful as a stretch bench for mounting, stretching and drying paraffin sections on slides, fixing bacterial smears, and heating fluid samples in Petri dishes. The black anodised surface provides an excellent visual contrast. The working plate is made of solid 8 mm aluminium with black anodised surface and ensures a constant, homogenous temperature over the entire heating surface. The touch display and switch are protected from water and paraffin. The unit has over-temperature protection for extra safety. Temperature adjustment and power On/Off switch, with control light for 'On' mode, are conveniently located at the front of the unit.
- Electronic touch display
- Sleek and compact
- Ideal size for drying up to 40 slides
- Temperature range between ambient and +89 °C
- Digital thermostat
Instruction manual: File:VWR Hotplate W10_Instruction Manual.pdf
For further information on the equipment usage contact mktracy@dtu.dk [14].
pH meter
If you are planning on doing chemical fixation on biological samples you will probably need to make buffers and use a pH-meter. The VWR pH-meter (model pH 1000L) is located in building 314, in the Soft Mater (toxic) Lab and it is dedicated to “Soft Matter” related work.
For further information on the equipment usage contact mktracy@dtu.dk [15].
EM sample preparation workflow
For TEM imaging of biological sample at room temperature or cryo conditions:
For SEM imaging of biological sample at room temperature or cryo conditions:
For further information on EM sample preparation of biological samples contact mktracy@dtu.dk [16].