Screening your mice? Try our Mouse Essentials PCR Panel. All the most important mouse colony screening tests, all by expert real time PCR...

...or how about our new Mouse PCR Minipanel - PCR tests for only the most common mouse pathogens - for economical colony screening...

...and don't forget our Mouse Fecal PCR Panel - includes 9 important fecal pathogens.

And... just for rabbits: our new Rabbit Fecal PCR Panel tests for 3 common causes of GI problems in rabbits.

For wild rodent infestations, remediation and environmental monitoring, use our Rodent Infestation PCR Panel

* * *

Zoologix also performs rodent and rabbit PCR tests for...

Aspiculuris tetraptera


BXV-1 virus



Clostridium piliforme


E. coli (enteroinvasive)



Encephalitozoon cuniculi


Francisella tularensis

Fur mites



Human adenoviruses

Klebsiella pneumoniae

K virus

Lactate dehydrogenase-elevating virus


Lymphocytic choriomeningitis virus (LCMV)


Mouse adenoviruses

Mouse cytomegaloviruses

Mouse hepatitis virus (MHV)

Mouse kidney parvovirus (MKV or MKPV)

Mouse minute virus (MMV)

Mouse norovirus (MNV)

Mouse parvovirus (MPV)

Mouse polyoma virus (POLY)

Mousepox virus (aka ectromelia virus, EV or ECTRO)

Mouse rotavirus

Mycoplasma pulmonis

Mycoplasma screen



Pneumocystis carinii

Pneumonia virus of mice (PVM)

Rabbit coronavirus

Rabbit fibroma virus

Rabbit hemorrhagic disease virus

Rat bite fever

Rat coronavirus

Reovirus screen

Reovirus type 3 (REO3)



Sendai virus (SEND)

Seoul virus


Sialodacryoadenitis virus (SDAV)

Streptobacillus moniliformis

Streptococcus pneumoniae

Syphacia muris

Syphacia obvelata

Theiler's murine encephalomyelitis virus (TMEV)

Tickborne encephalitis virus

Treponema cuniculi/ paraluiscuniculi


Tyzzer's disease

Whitewater Arroyo virus

Yersinia enterocolitica

Yersinia pestis

Yersinia pseudotuberculosis

Encephalitozoon cuniculi PCR test
rodent and rabbit assay data sheet

Encephalitozoon cuniculi

Test code: F0013 - Ultrasensitive qualitative detection of Encephalitozoon cuniculi by real time PCR

Encephalitozoon cuniculi is a single celled parasite belonging to the phylum Microsporidia. Microsporidia are obligate intracellular parasitic fungi which can infect any animal groups. Encephalitozoon cuniculi is particularly associated with disease in captive and wild rabbit populations; however, it has also been reported in dogs, cats, foxes, captive monkeys, mink and even in humans. Animals infected with this fungus may not develop symptoms and may become potential carriers of the fungus.

E. cuniculi can form spores which are the infective form of the organism. Spores are coated with a thick wall which enables them to be very resistant to harsh environmental conditions, so they can survive for a long time in the environment. Once a spore gets into an animal’s intestinal tract or airway, the spore will send out a polar tubule to infect host cells. Through the polar tubule, the spore injects its sporoplasm into the host cell. The sporoplasm then develops into its proliferative form (known as a meront) by merogeny (binary fission) or schizogony (multiple fission). The meronts will differentiate into sporonts, and subsequently into sporoblasts. Sporoblasts will develop their polar tube, disc, anterior and posterior vacuoles, and plasma membrane, and become mature infective spores.

Although E. cuniculi is mainly reported in rabbits, this parasite is becoming an important concern to human health since people with compromised immune system may be subject to the infection. The fungus can infect kidney, lung, brain and other vital organs. A vaccine is not available and there is no standardized treatment protocol for people infected with this fungus.

E. cuniculi is difficult to diagnose because of its similarity to other microbial pathogens. Serological detection may not be useful because many animals may have cleared prior exposure to the fungus. Molecular detection by polymerase chain reaction is a useful alternative since this method is highly specific and sensitive.


  • Help confirm the disease causing agent
  • Shorten the time required to confirm a clinical diagnosis
  • Help identify carriers of E. cuniculi
  • Help ensure that animal colonies are free of E. cuniculi
  • Early prevention of spread of the pathogen among individuals
  • Minimize personnel exposure to this pathogen
  • Safety monitoring of biological products that derive from rabbits and other animals

Santaniello, A., Cimmino, I., Dipineto, L., Agognon, A. L., Beguinot, F., Formisano, P., Fioretti, A., Menna, L. F., & Oriente, F. (2021). Zoonotic risk of Encephalitozoon cuniculi in animal-assisted interventions: laboratory strategies for the diagnosis of infections in humans and animals. Intl. J. Environ. Res. Public Health, 18(17), 9333.

Specimen requirements: 0.2 ml feces, or rectal swab, or urine, or CSF, or environmental swab.

Contact Zoologix if advice is needed to determine an appropriate specimen type for a specific diagnostic application. For specimen types not listed here, please contact Zoologix to confirm specimen acceptability and shipping instructions.

For all specimen types, if there will be a delay in shipping, or during very warm weather, refrigerate specimens until shipped and ship with a cold pack unless more stringent shipping requirements are specified. Frozen specimens should be shipped so as to remain frozen in transit. See shipping instructions for more information.

Turnaround time: 2 business days

Methodology: Qualitative real time polymerase chain reaction

Normal range: Nondetected

2003-2023 Zoologix, Inc. • Email Zoologix • Phone (818) 717-8880