Bio-Imaging Unit

Nikon A1R (Confocal)

Nikon A1R (Invert)


The Nikon A1R is a point scanning confocal microscope based around a fully motorized, inverted Nikon Ti body with hardware-enabled focus correction.

The Nikon A1R has three photomultipliers for fluorescence imaging, one for transmitted light detection and a dedicated photomultiplier array for spectral profiling or if required, unmixing of fluorescently ‘complex’ specimens.

Incorporated into the confocal scan-head are both resonant (fast scanning) and non-resonant (conventional scanning) scanning mirrors. This allows experimenters to have the option of imaging in high resolution (up to 4096x4096 pixels), at high speed (420fps at 512x32 pixels) or a combination of both.

This arrangement is ideal for live-cell photo-activation and photo-bleaching studies where resonant scanning can be used to capture images at high-speed and non-resonant scanning can be used to target a region of interest for photo-activation.

Resonant scanning mode has added benefits; for live-cell experiments, photo-sensitive specimens remain live for longer and fluorophore bleaching is significantly reduced. The system will also perform regular 2D, 3D and 4D imaging.

The microscope is fully-enclosed in a heated environmental chamber and has the ability to set, maintain and monitor temperature, humidity, CO2 and O2 levels as imaging conditions dictate.

The system is run through Nikon’s versatile Elements software package and incorporates wizards to perform common imaging tasks such as FRAP, FRET and colocalisation as well as data quantification.


Here you can find the specifications for this microscope.

Illumination source

Laser excitation:

  • 405nm
  • Multi line Argon: 457nm, 476nm, 488nm, 514nm
  • 561nm
  • 647nm

Example filters

Filter numberExcitation filterDichroic mirror cut offemission filterExample fluorophores
Chroma 49000 325 - 375 400 4.5 - 485 DAPI
Chroma 49001 426 - 446 455 460 - 500 CFP
Chroma 49002 450 - 490 495 500 - 575 GFP
Chroma 49003 490 - 510  515 520 - 550 YFP
Chroma 49008 540 - 580 585 598 - 662 mCherry
Semrock Cy5-4040C 608 - 648 660 672 - 712 Cy5

Example objectives

LensImmersionNA (mm)WD (mm)Coverglass thickness (mm)Applications
CFI Plan Apo VC 100x Oil 1,4 0.133 0.17 Brightfield, DIC, Pol, Fluorescence
Plan Apo 100x OFN25 Ph3 Oil 1, 4   0.17 Brightfield, Fluorescence, Ph3


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 minimum booking time for this system 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.