Ragon Institute

Microscopy Core

Core Overview

The Ragon Institute’s Microscopy Core provides cutting-edge imaging technologies to answer fundamental questions in immunology and infectious disease research. Our services include slide scanning, confocal microscopy, lightsheet microscopy, multispectral imaging, live-cell imaging, super-resolution imaging, and imaging flow cytometry.

We provide assistance with experimental design, sample preparation, imaging, and analysis as well as training for use of our systems. Our facility is open to both external and internal users.

Michael Waring

Director

Imaging Systems and Platforms

We have seven imaging systems, including a Zeiss LSM 510 laser scanning confocal microscope and a fully automated Zeiss Axio Observer microscope in BL3+ facilities, two slide scanning systems (Zeiss MIRAX MIDI and TissueGnostics TissueFAXS), and a Cytek Amnis ImageStreamX MkII housed in our Flow Cytometry Core.

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Photo Gallery

Zeiss Celldiscoverer 7 with LSM 900 (confocal) and Airyscan 2 (super-resolution)

Automated imaging platform. Especially suited to multi-well plate imaging in confocal, epifluorescence, and brightfield. Long-term, stable, time-lapse imaging capability of living cells and tissues. Accommodates glass slides, multi-chambered slides (up to 3 slides at a time), and Petri dishes of various sizes. Can perform high speed widefield epifluorescence in 3D with deconvolution. Airyscan 2 permits rapid mild super-resolution imaging of reliable 120 nm resolution using any fluorophores compatible with the lasers/filter sets.

Celldiscoverer 7 product information (Zeiss) [pdf]

Automated features

  • recognition and loading of sample container
  • measurement of bottom thickness, material and skirt height
  • UV disinfection of sample chamber
  • adaptive correction of objective based on imaging depth
  • autofocus and focus maps (hardware-based)
  • active focus stabilization (hardware-based)
  • barcode reading
  • auto-immersion of objectives
  • automated objective heating
  • auto-adjustment of transmitted light contrast based on vessel geometry
  • well plate calibration and adaptation of travelling ranges across sample chamber
  • excitation adapts to FOV

Objectives

  • Plan-Apochromat 5×/0.35 — WD 5.10 mm — thin vessel bottom 0.13-0.21 mm — thick vessel bottom up to 1.2 mm — 3 magnification changer options (2.5×/0.12) (5×/0.25) (10×/0.35)
  • Plan-Apochromat 20×/0.7 [autocorr] — WD 2.20 mm — thin vessel bottom 0.13-0.21 mm — thick vessel bottom up to 1.2 mm — 3 magnification changer options (10×/0.35) (20×/0.7) (40×/0.7)
  • Plan-Apochromat 20×/0.95 [autocorr] — WD 0.76 mm — thin vessel bottom 0.13-0.21 mm — 3 magnification changer options (10×/0.5) (20×/0.8) (40×/0.95)
  • Plan-Apochromat 50×/1.2 [W] [autocorr] [autoimmersion] — WD 0.84 mm — thin vessel bottom 0.13-0.21 mm — 3 magnification changer options (25×/1.2) (50×/1.2) (100×/1.2)

Configuration highlights

  • Afocal magnification changer (0.5× / 1× / 2×)
  • Live cell incubation (temperature and CO2 control)
  • Mounting frames for petri dishes, chamber slides, glass slides, multichamber and multiwell plates
  • 7 LED excitation wavelengths for widefield imaging (385 nm, 420 nm, 470 nm, 520 nm, 567 nm, 590 nm, 625 nm)
  • Multiple emission filter sets for widefield imaging (90 HE, 91 HE, 92 HE)
  • Laser module URGB with 4 excitation wavelengths for confocal imaging (405 nm diode laser 5 mW | 488 nm diode laser 10 mW | 561 nm diode (SHG) laser 10 mW | 640 nm diode laser 5 mW)
  • Transmitted light IR-LED (725 nm) brightfield and adaptive Phase Gradient Contrast
  • Camera Axiocam 712 mono for widefield imaging (SONY IMX304 Exmor CMOS)
  • LSM 900 scan-head with 2x GaAsP detectors and flexible spectral detection for confocal imaging
  • AiryScan 2 detector (type 63×) for super-resolution imaging
TissueGnostics TissueFAXS SL Q high-throughput slide-scanning confocal

Automated high-throughput confocal slide scanning system. Scans entire tissue sections or cultured cell populations on defined regions of slides at 5x, 10x, 20x, 40x, or 63x magnification in color brightfield, widefield fluorescence, and 3D confocal fluorescence. 5-color fluorescence imaging. Cell populations can be rapidly quantified using TissueQuest (fluorescence), HistoQuest (color brightfield), or StrataQuest (both, plus tissue structure quantification) analysis software. SL = 120-slide high-throughput loader. Q = spinning disc confocal. Instrument uses Zeiss AxioImager Z2 microscope stand.

TissueFAXS SL Q [tissuegnostics.com]

TissueFAXS platform [pdf]

Looking for Collaboration?

Michael Waring

(978) 793-1526

[email protected]

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