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The Zeiss Axio Observer Microscope 

The Zeiss Elyra TIRF PALM/STORM super-resolution microscope mixes air (10x, 
20x) and oil (100x) objectives. Make sure you use the appropriate immersion 
fluid with the objective. The Ziess immersion oil for the 100x  oil objective is 
left on the air table. The oil immersion fluid is prone to drips from the 
applicator so take care when using it not to overload the applicator. 

It is far easier to control the DAPI, GFP and DsRed mercury lamp fluorescence 
(as viewed down the eyepieces) from Zen Blue software. 

Alcohol 70% is provided along with gloves and green-box lab tissues. These are 
supplied for cleaning the samples and spillages and are not to be used on the 
objectives. Be careful where you stand the 70% alcohol bottle as the alcohol 
can drip out from the spout into electronics. 

Only Whatman 105 Lens Cleaning tissues are to be used to wipe immersion oil 
from the objectives. The air objectives shouldn’t need cleaning after use. 

If you are using the heated incubator at 37oC you should switch on the 
incubator at least 2 hours before imaging. For the most stable time-lapse 
imaging at 37oC leave the incubator on overnight. 

To view fluorescence down the microscope you have to press the X-Cite Start 
(Stop) button or use the footswitch, so that the X-Cites ‘Open’ LED comes on. 
You set the microscope to view down the eyepieces via Zen Black software, 
under ‘Locate’. Set the emission filters to those required for the eyepieces 
(FSet77HE, GFP/DsRed) and the lasers (other filters).  

WARNING:

 

To lift out the slide/Petri dish insert from the Piezzo Z motor stage 

always pick up the insert by the two middle finger-grip indent holes – NEVER 
use the levelling adjuster screws at the top left and bottom right.

 

The motorised Piezo Z stage is only controlled by the Zen Black software. The 
microscope stand and the Zeiss microscope remote LCD station only move the 
main microscope Z motor. The Piezo stage has a total range of 100um. 

The two buttons on the right of the microscope on the focus knobs raise the 
objectives to the work position (far button) and drop the objective to the load 
position (near button). 

Summary of Contents for ELYRA

Page 1: ...Page 1 Wellcome Trust Centre for Human Genetics Cellular Imaging Microscopy Core The Zeiss Elyra TIRF Confocal Abridged INSTRUCTIONS...

Page 2: ...super resolution with temperature control Plan Apochromat 10x NA 0 3 air objective Plan Apochromat 20x objective NA 0 8 air objective Alpha Plan Apochromat 100x NA 1 46 oil objective Andor iXon DU 89...

Page 3: ...ain with the camera it s locked in software The EM Gain going from 1 to 200 goes from the equivalent of second to a 20ms to frame rate Avoid putting too much light onto the cameras EMCCD sensor The EM...

Page 4: ...r use If you are using the heated incubator at 37oC you should switch on the incubator at least 2 hours before imaging For the most stable time lapse imaging at 37oC leave the incubator on overnight T...

Page 5: ...yra microscope The tube lens can be 1x or 1 6x always use the 1 6x with super resolution If the 1x tube lens is selected you can see the shadow of the 1 6x down the microscope vanishes when the 1 6x i...

Page 6: ...n OOO appears on the display this is the lamp intensity Press Up Down to select 0 12 25 50 and 100 lamp intensity Warning things can very bright down the eyepieces even with the standard FITC TRITC Fa...

Page 7: ...ails on the operation of the Elrya TIRF super resolution microscope see the Ziess Elyra manual and in particular the Elyra Quick Guide after chapter 7 of the manual a pdf download of the Quick Guide i...

Page 8: ...ith excitation light in combination with open close filter options in Zen Black 8 Ensure that the doors and viewing panels are closed on the black stage incubator or the lasers will switch off Wait 5...

Page 9: ...y possibility of damage during start up when the XY motorised stage initialises Note The top of the 100x objective rotates so avoid accidently turning it 4 Drop the 10x objective nearer to the Load lo...

Page 10: ...ave any microscope imaging problems or queries just ask a member of the Microscopy Core staff for help There is additional help and advice on our Core web pages http www well ox ac uk microscopy WTCHG...

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