oeiras_zeiss_lightsheet_z1
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oeiras_zeiss_lightsheet_z1 [2024/12/06 17:51] bioimaging |
oeiras_zeiss_lightsheet_z1 [2025/03/14 11:01] (current) bioimaging |
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| <html> | <html> | ||
| - | <img src="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_lightsheet_z1_name_new.png"> | + | <img src="/facility/bioimaging/lib/exe/fetch.php?media=oeiras_zeiss_lightsheet_z.1_name_gimm_2024.png"> |
| <table style="border:0px solid white;"> | <table style="border:0px solid white;"> | ||
| <tr style="border:0px solid white;"> | <tr style="border:0px solid white;"> | ||
| <td style="border:0px solid white;"> | <td style="border:0px solid white;"> | ||
| - | <a href="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_lightsheet_z1_wiki_2024.png"><img src="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_lightsheet_z1_wiki_2024.png" width=300></a> | + | <a href="/facility/bioimaging/lib/exe/fetch.php?media=lightsheet.jpg"><img src="/facility/bioimaging/lib/exe/fetch.php?media=lightsheet.jpg" width=300></a> |
| <td style="border:0px solid white;"> <p style="line-height:1.8"> | <td style="border:0px solid white;"> <p style="line-height:1.8"> | ||
| - | <b>Location</b>: <a> Room 0B03 </a> (<img src="/facility/bioimaging/lib/exe/fetch.php?media=phone_neg.png" width=15> 4533) <br> | + | <b>Location</b>: [Oeiras] Room 0B03<br> |
| <b>Manufacturer</b>: <a href="http://www.zeiss.de/micro" target="_blank">ZEISS Microscopy</a><br> | <b>Manufacturer</b>: <a href="http://www.zeiss.de/micro" target="_blank">ZEISS Microscopy</a><br> | ||
| <b>Model</b>: <a href="https://www.youtube.com/watch?v=vKHQudCKVGc" target="_blank">Lightsheet Z.1</a> (click for Zeiss webinar)<br> | <b>Model</b>: <a href="https://www.youtube.com/watch?v=vKHQudCKVGc" target="_blank">Lightsheet Z.1</a> (click for Zeiss webinar)<br> | ||
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|   <br> |   <br> | ||
|   <br> |   <br> | ||
| - | → <a href="/facility/bioimaging/doku.php?id=zeiss_lightsheet_z1_usage"><img src="/facility/bioimaging/lib/exe/fetch.php?media=chart_line.png"> UPDATE Zeiss Lightsheet Z.1 Usage Statistics</a> | + | → <a href="/facility/bioimaging/doku.php?id=oeiras_lightsheet_z1_usage"><img src="/facility/bioimaging/lib/exe/fetch.php?media=chart_line.png"> ZEISS Lightsheet Z.1 Usage Statistics</a> |
| </p> | </p> | ||
| </td> | </td> | ||
| Line 37: | Line 37: | ||
| * **Sample Size**: up to 1 x 1 x 2 cm | * **Sample Size**: up to 1 x 1 x 2 cm | ||
| - | * **Penetration depth**: up to 5.6 mm | ||
| + | <html> | ||
| + | <!-- | ||
| * [[https://imm.medicina.ulisboa.pt/facility/bioimaging/lib/exe/fetch.php?media=en_poster_overview-clearing-methods_rel-2.0.pdf|Clearing Methods in Microscopy (poster)]] | * [[https://imm.medicina.ulisboa.pt/facility/bioimaging/lib/exe/fetch.php?media=en_poster_overview-clearing-methods_rel-2.0.pdf|Clearing Methods in Microscopy (poster)]] | ||
| - | * [[https://hcbi.fas.harvard.edu/files/lightsheetz1_sample-preparation_zeiss.pdf| Sample Preparation for Light Sheet Microscopy (white paper)]] | ||
| * [[https://asset-downloads.zeiss.com/catalogs/download/mic/b91bc689-66ab-4d85-b3f6-c31ebea22ba7/EN_wp_Lightsheet-Z.1_Expanding-Clearing-Solutions.pdf| Improved Imaging of Cleared Samples (application note)]] | * [[https://asset-downloads.zeiss.com/catalogs/download/mic/b91bc689-66ab-4d85-b3f6-c31ebea22ba7/EN_wp_Lightsheet-Z.1_Expanding-Clearing-Solutions.pdf| Improved Imaging of Cleared Samples (application note)]] | ||
| - | * [[https://www.youtube.com/watch?v=Ki1wtoXIkis|Sample Preparation for Whole Organisms, Plants, and 3D Cell & Tissue Cultures (video)]] | ||
| * [[https://www.youtube.com/watch?v=Ql7T7LrvI_I|ZEISS Microscopy How-to: Mount cleared samples in Lightsheet Z.1 (video)]] | * [[https://www.youtube.com/watch?v=Ql7T7LrvI_I|ZEISS Microscopy How-to: Mount cleared samples in Lightsheet Z.1 (video)]] | ||
| * [[https://www.youtube.com/watch?v=vKHQudCKVGc|ZEISS Webinar: In Vivo and Cleared Tissue Imaging with Light Sheet Fluorescence Microscopy (video)]] | * [[https://www.youtube.com/watch?v=vKHQudCKVGc|ZEISS Webinar: In Vivo and Cleared Tissue Imaging with Light Sheet Fluorescence Microscopy (video)]] | ||
| + | --> | ||
| + | </html> | ||
| + | |||
| + | * [[https://hcbi.fas.harvard.edu/files/lightsheetz1_sample-preparation_zeiss.pdf| Sample Preparation for Light Sheet Microscopy (white paper)]] | ||
| + | * [[https://www.youtube.com/watch?v=Ki1wtoXIkis|Sample Preparation for Whole Organisms, Plants, and 3D Cell & Tissue Cultures (video)]] | ||
| + | |||
| ===== Tutorials for Image Analysis with Arivis ===== | ===== Tutorials for Image Analysis with Arivis ===== | ||
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| ==== LASERs ==== | ==== LASERs ==== | ||
| ^ Laser Unit ^ Wavelength ^ Maximum Power ^ | ^ Laser Unit ^ Wavelength ^ Maximum Power ^ | ||
| - | | Solid State 488 | 488 nm | 30 mW | | + | | Solid State 445 | 445 nm | 20 mW | |
| - | | Solid State 561 | 561 nm | 20 mW | | + | | Solid State 488 | 488 nm | 50 mW | |
| + | | Solid State 561 | 561 nm | 50 mW | | ||
| | Solid State 638 | 638 nm | 75 mW | | | Solid State 638 | 638 nm | 75 mW | | ||
| Line 66: | Line 72: | ||
| ^ Magnification ^ Model ^ Immersion ^ NA ^ WD (mm) ^ Reference ^ | ^ Magnification ^ Model ^ Immersion ^ NA ^ WD (mm) ^ Reference ^ | ||
| | 20x | W Plan-Apochromat DIC 75mm | Water | 1.00 | 2.4 | [[https://www.micro-shop.zeiss.com/en/de/shop/objectives/421452-9700-000/Objective-W-Plan-Apochromat-20x-1.0-DIC-M27-75mm#|421452-9700-000]] | | | 20x | W Plan-Apochromat DIC 75mm | Water | 1.00 | 2.4 | [[https://www.micro-shop.zeiss.com/en/de/shop/objectives/421452-9700-000/Objective-W-Plan-Apochromat-20x-1.0-DIC-M27-75mm#|421452-9700-000]] | | ||
| - | | 20x | Clr Plan-Neofluar Corr nd=1.45 85mm | Clearing | 1.00 | 5.6 | [[https://www.micro-shop.zeiss.com/en/de/shop/objectives/421459-9970-000/Objective-Clr-Plan-Neofluar-20x-1.0-Corr-nd-1.45-M32-85mm|421459-9970-000]] | | + | | 40x | W Plan-Apochromat DIC M27 | Water | 1.00 | 2.5 | [[https://www.micro-shop.zeiss.com/en/us/shop/objectives/421462-9900-799/Objective-W-Plan-Apochromat-40x-1.0-DIC-M27| 421462-9900-799]] | |
| + | |||
| + | ==== Filtersets ==== | ||
| + | |||
| + | In each experiment you can only use Filter Turret A (installed by default) or B. Please let the facility staff know that you want to use filter turret B so that they can install and configure it in advance. | ||
| + | |||
| + | The list of fluorophores presented in both tables is meant to be representative. Use [[https://www.thermofisher.com/order/fluorescence-spectraviewer/|Spectra Viewer]] or [[https://www.fpbase.org|FPBase]] to determine which set of lasers and emission filters you want to optimize the system to the specific fluorophores you have in your sample. | ||
| + | |||
| + | ^ Select Label ^ Camera #1 Filter ^ Camera #2 Filter ^ Fluorophores (Cam #1 : Cam #2) ^ Filter Turret ^ | ||
| + | | LP 510 | BP 460-500 | LP 585 | CFP, mCherry : RFP | A | | ||
| + | | LP 560 | BP 505-545 | BP 565-615 | GFP, mCherry : RFP | A | | ||
| + | | LP 560 (2) | BP 505-545 | LP 585 | GFP, mCherry : RFP | A | | ||
| + | | LP 560 (3) | BP 505-545 | LP 660 | GFP, mPlum : mStrawberry, tdTomato | A | | ||
| + | |||
| + | ^ Select Label ^ Camera #1 Filter ^ Camera #2 Filter ^ Fluorophores (Cam #1 : Cam #2) ^ Filter Turret ^ | ||
| + | | LP 510 | BP 460-500 | LP 660 | CFP, YFP : Cy5 | B | | ||
| + | | LP 580 | BP 525-565 | LP 585 | YFP, mCherry : mPlum | B | | ||
| + | |||
| + | |||
| + | ===== Turn On Procedures ===== | ||
| + | |||
| + | * Turn the system, incubation and PC, in this order. | ||
| + | |||
| + | * If the computer is already turned on, restart it. Start the system and incubator if you are using either CO2, humidity or/and Peltier modules. Check the humidifier bottle, and replace water if necessary. | ||
| + | |||
| + | * Start the Zen Black software (icon in Windows desktop), select the “start system” with the “boot status” option on, and confirm that no errors show up. | ||
| + | |||
| + | If you do not start the incubator system, you may receive errors relating to the absence of these systems in ZEN software; however the system should be working as expected. If this is not the case, please contact the facility staff. | ||
| + | |||
| + | |||
| + | ===== Turn Off Procedures ===== | ||
| + | |||
| + | |||
| + | * Place the stage in Load Position and remove your sample. | ||
| + | |||
| + | * Close the software and save your files. __Warning:__ DO NOT CONNECT external disks/USB flash drives to the workstation! | ||
| + | |||
| + | * Shut down the computer once you are done transferring the datasets and will not need to access it remotely. Otherwise, ask the facility staff to turn it off later. | ||
| + | |||
| + | * Turn off the system using the control units (PC, System and Incubation). | ||
| + | |||
| + | * Remove the chamber, disassemble it, and rinse all the parts that compose it with distilled water. Leave them to dry in the appropriate box with the lid opened. __Warning:__ If you have been trained and authorized by the staff to handle objectives, make sure to check and store the 2 illumination objectives, and to place the detection objective in the "washer" before cleaning it. You can ask the facility staff to inspect and clean them to prepare for the next user, if you're not comfortable with this procedure. | ||
| - | ==== Filtersets (Water) ==== | + | * Take your belongings (dishes, gloves, syringe, etc...), and leave the desk ready for the next user. |
| - | ^ Filterset ^ Emission ^ | ||
| - | | GFP | 505-545 nm | | ||
| - | | Cy3 | 575-615 nm | | ||
| - | | DRAQ5 | LP 660 nm | | ||
| ---- | ---- | ||
| [[resources|Back to the Equipment page]] | [[resources|Back to the Equipment page]] | ||
oeiras_zeiss_lightsheet_z1.1733503911.txt.gz · Last modified: 2024/12/06 17:51 by bioimaging
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