Bio-Imaging Unit

Zeiss AxioImager (System 3)

Zeiss AxioImager with Apotome (System 3)


The Zeiss AxioImager with Apotome (System 3) is a high quality wide field imaging system.

The Zeiss AxioImager is a high quality wide field imaging system that offers three modes of operation:

  • Brightfield transmitted light (phase and DIC)
  • Wide field fluorescence
  • Apotome structured illumination (confocal like) fluorescence

The system utilises two separate camera systems for colour and monochrome imaging.

The Apotome (structured illumination) mode allows users to collect confocal-like images and ‘Z’ stacks, which can subsequently be projected as 3D images (stereo anaglyphs) and movies.

A range of fluorescent filters are available which cover the commonly used dyes:

  • DAPI
  • FITC
  • TRITC and CY5

the illumination source is a wide spectrum alignment free metal halide lamp.

The microscope has as an autofocus system and a precision motorised stage which enables users to automatically acquire tiled images from large specimens (or from an entire slide) and stitch them together post capture.

Analysis of data and images can be carried out using the AxioVision software which includes quantification and colocalisation modules.


Here you can find the specifications for this microscope.


  • EC Plan Neofluar 2.5x/0.075,
  • EC Plan Neofluar 5x/0.15 Ph1
  • EC Plan Neofluar 10x/0.3 Ph1
  • EC Plan Neofluar 20x/0.5 Ph2
  • EC Plan Neofluar 40x/1.3 Ph2 (oil)
  • EC Plan Apochromat 63x/1.4 Ph3 (oil)


  • DAPI (FS 49),
  • GFP (FS 38HE),
  • YFP (FS 46HE),
  • Rhodamine (FS 20HE),
  • Texas Red (FS 00),
  • Cy5 (FS 50)

Imaging modes:

  • Wide field fluorecuorescence
  • brightfield, with multi-point x,y (2D) with tiling, volume x,y,z (3D)
  • Structured illumination (Apotome, fluorescence only)


  • Zeiss Zen blue


This microscope is located in the Institute for Genetic Medicine.

BioImaging Unit (IGM) West Wing, International Centre for Life room B162.

Institute of Genetic Medicine
Newcastle University
International Centre for Life
Central Parkway
Newcastle upon Tyne

Here, you can get directions to the building.

Enter your postcode or address to find directions


Find out how to book this microscope.

The minimal booking time for this equipment is 30 minutes. Time increments of 15 minutes are permitted.

Bookings can be cancelled with no charge up to an hour before scheduled use.

Before booking this equipment, please ensure the following:

  • any users are fully trained, and approved by a member of BioImaging facility staff
  • microscopes are left in a good state of tidiness (lenses/stage should be cleaned of any oil)
  • filters and lenses must not be removed or switched between systems without authorisation from Bioimaging facility staff

If you work at Newcastle University, you can book this microscope online by using iLab.

If you're a commercial company or an academic at another institution, just contact us to discuss your requirements.