Lab Diagnosis of Intestinal Parasitic Infections

Last updated on May 30th, 2021

Laboratory diagnosis of intestinal parasitic infections can be carried out by detection and identification of the parasites or their particular stages (ova/egg, cyst, larva or trophozoite) in the stool specimen.

Stool sample collection

Stool specimen should be collected in a wide-mouthed, clean, leak-proof container.  The sample should be collected after onset of symptoms and ideally before the initiation of the antiparasitic therapy.  First morning sample is preferable. The amount of stool and the frequency of stool specimen submission differ according to the suspected disease. Generally collections of three stool specimen is sufficient to make diagnosis of most intestinal parasitic infections but for some diseases like giardiasis or amoebiasis, a total of six specimens are preferable.

Transport of stool specimen

Liquid & semi-formed stool specimens should be examined within 30 minutes of collections to visualize the motility of trophozoites (if giardiasis/amoebiasis is suspected).  Further delay in examination may disintegrate the trophozoites.  Formed stools may be examined up to 24 hours after passage.

 Intestinal Parasites found in Faeces

Name of the Parasite Protozoa or Helminth Disease
Entamoeba histolytica Protozoa Amoebiasis & ameobic liver abscess
Giardia lamblia Protozoa Giardiasis
Cryptosporidium parvum Protozoa Cryptosporidiosis
Cystoisospora belli (Previously known as Isospora belli) Protozoa Cystoisosporiasis
Cyclospora cayetanensis Protozoa Cyclosporiasis
Balantidium coli Protozoa Balantidiasis
Taenia solium (pork tapeworm) Helminth Taeniasis & cysticercosis
Taenia saginata (beef tapeworm) Helminth Taeniasis
Hymenolepis nana (dwarf tapeworm) Helminth Hymenolepiasis
Schistosoma mansoni, S. haematobium, S. japonicum Helminth Schistosomiasis
Fasciola hepatica (the common liver fluke) or (the sheep liver fluke). Helminth Fascioliasis
Ascaris lumbricoides (large roundworm) Helminth Ascariasis
Ancylostoma duodenale (Old world hookworm) Helminth Hookworm infection 
Necatar americanus (New World hookworm) Helminth Necatoriasis (hookworm infestations)
Enterobius vermicularis (Pin worm) Helminth Enterobiasis
Trichuris trichiura (Whip worm) Helminth Trichuriasis (whipworm infection)

Preservation of the stool specimen

Preservatives (like formalin, polyvinyl alcohol) are being used for the permanent fixation of stool specimens. Preservatives kill the parasites so characteristics motility of the trophozoites cannot be seen. Preservatives help to preserve morphological forms (cyst, ova, and larvae) of parasites while being sent to reference laboratories for analysis and also lower the risk of infections to the laboratory technicians.

Laboratory detection methods for Intestinal Parasitic Infections

Macroscopic examination

Stool sample is first examined macroscopically for its consistency (formed, semi-formed, or liquid), colour, odour and presence of blood or mucus. Occasionally adult intestinal helminths e.g. Ascaris lumbricoides and Enterobius vermicularis or segment (proglottids) of tapeworms may be seen in the stool specimen.  Presence of blood and mucus in stool maybe because of amoebic dysentery or invasive infections such as balantidisis, schistomiasis or in severe infections with Trichuris trichiura. In giardiasis, the stool specimen may be fat-colored and frothy.

Microscopic Examination 

Eggs (ova) of various intestinal parasites

Microscopic examination of the stool is done to detect and identify the cyst and/or trophozoites of protozoan parasites. In the case of helminthic infestations eggs (ova), larvae or segments of helminths can be seen.  Direct wet mount (saline or iodine) of stool specimen is routinely done in diagnostic laboratories for the detection and identification of agents of intestinal parasitic infections. To increase the detection rate (sensitivity), stool specimen can be concentrated by various flotation/sedimentation techniques. Smear from the concentrated sample (e.g. sediment) or permanent stained smear (e.g. by Iron-hematoxylin stain, Trichrome stain, Modified acid-fast stain) are used  as diagnostic tool depending on the suspected  infections. 

Culture Methods

Unlike Bacteriology, culture methods are rarely used as a diagnostic tool in parasitology.   Culture methods are available for some of the protozoan parasites (Entamoeba histolytica, Balantidium coli), and Helminths e.g. Harada-Mori culture for recovering larvae of nematodes such as Hookworms, Strongyloides stercoralis.


When routine Ova and Parasite Exam (O & P exam) fails to identify the agents responsible for a suspected parasitic infections or when invasive parasitic infection is suspected, serological test are used to make diagnosis.  Serological tests are available for the diagnosis of amoebiasis, giardiasis,  cysticercosis, schistosomiasis, strongyloidiasis and toxoplasmosis. Direct fluorescent antibody (DFA) assay, Enzyme immunoassay (EIA) and Rapid immunochromatographic cartridge assays are commonly used serological techniques.

Molecular Assay

Molecular assays (e.g. nucleic acid amplification tests such as PCR, DNA Probes) are reliable but expensive diagnostic tools  which can be used for the diagnosis of intestinal parasitic infections.  So far, molecular assays are not preferred method of diagnosis for stool parasites. 

References and further Reading

  1. DPDx – Laboratory Identification of Parasites of Public Health Concern
About Acharya Tankeshwar 474 Articles
Hello, thank you for visiting my blog. I am Tankeshwar Acharya. Blogging is my passion. I am working as an Asst. Professor and Microbiologist at Department of Microbiology and Immunology, Patan Academy of Health Sciences, Nepal. If you want me to write about any posts that you found confusing/difficult, please mention in the comments below.


  1. I have discovered this blog by chance and found it useful and very well-designed. It is worth to be shared and kept alive as a good educational tool. I am wondering if you could add a new rubric of ‘Tips and tricks” especially crafted for Health Care Professionals living in remote, isolated areas who try to do their best despite suboptimal material conditions to help their patients and communities. Thank you!

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  3. Hello, i will like to know if any of the parasites listed can bring fatal to our health or even death?. If there any can you please give comment about it and how did it happen and way to prevent it.

  4. Found this blog by chance…and ts so helpful and educative. Keep up the good work and thank you.

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