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STOOL
Outline
■ Possible pathogens
■ Commensal
■ Summary
Possible pathogens
BACTERIA:
Gram positive Gram negative
1.Clostridium perfringens types A & C 1. Shigella species
2.Clostridium difficile 2. Salmonella serovars
3.Bacillus cereus (toxin) 3. Campylobacter sp.
4.Staphylococcus aureus 4. Yersinia enterocolitica
5. E.coli (toxin) (ETEC,
EIEC, EPEC, EHEC)
6. Vibrio cholerae 01, 0139
7. Other Vibrio species
8. Aeromonas species
■ Also M. tuberculosis
Possible pathogens
VIRUSES:
Mainly rotaviruses & occasionally Norwalk agent, Adenoviruses,
Astrovirus, Calcivirus & Coronavirus
PARASITES:
Entamoeba histolytica
Giardia lamblia
Intestinal coccidia (Isospora, Cryptosporidium, Cyclospora)
Other protozoan enteric pathogens
Possible pathogens
■ Acute infective diarrhoea & gastroenteritis (diarrhoea + vomiting)~ ill
health & premature death in developing countries ~ CONTAMINATED
water supplies & POOR sanitation
■ Loss of water & electrolytes from the body ~ SEVERE DEHYDRATION
– if untreated can be rapidly fatal in young children, especially
those that are malnourished, hypoglycaemic & in poor health
■ Campylobacter sp.
– C. jejuni & C. coli are common causes of enteritis in young children
in developing countries
Possible pathogens
■ Vibrio sp.
■ V. cholerae serogroups 01 (biotype El Tor) & 0139 cause endemic &
epidemic cholera
– Severe dehydration, vomiting, abdominal pain & acidosis ~ action
of an exotoxin (cholera toxin) ~ causes water & electrolytes to flow
into the bowel lumen
– In severe infections, ‘rice water’ stools containing many vibrios are
passed continuously~ urgent fluid replacement therapy to prevent
collapse & death
■ Y. enterocolitica
– Cause gastroenteritis in Africa, Japan, Europe & Canada
– The organism is invasive & some strains are toxigenic
Possible pathogens
■ Clostridium sp.
■ C. perfringens type A ~ food-poisoning by secreting enterotoxin in the
intestine during sporulation
– Alpha toxin is the main lethal toxin produced
■ C. perfringens type C ~ severe jejunitis (enteritis necroticans) or pigbel
– cause of death in young children especially in Papua New Guinea,
China, Solomon Islands, Bangladesh & some parts of East Africa
– Infection is by the ingestion of contaminated pig meat
– A lethal beta-toxin is produced
■ C. difficile ~ antimicrobial associated diarrhoea & sometimes PMC, a
rare & occasionally fatal condition
Possible pathogens
■ S. aureus food-poisoning
– Ingestion of preformed toxin in contaminated food (often dairy
products)
– Occasionally, staphylococcal enterocolitis ~ complication of broad-
spectrum antibiotic therapy
■ B. cereus food-poisoning
– ingestion of preformed toxin usually in rice or other cereals which
have been cooked & then stored for several days in warm temp
Possible pathogens
■ Rotavirus
– Commonest cause of acute secretory diarrhoea in young children (6 months–
3 years)
– Diarrhoea is the result of loss of extracellular fluid, due to impaired absorption
– Diarrhoea & vomiting ~ severe dehydration
– Most infections are accompanied by fever
■ Persistent diarrhoea
– Often leads to diarrhoea-wasting syndrome (‘slim disease’) ~ common in AIDS
– Due in part to opportunistic protozoal pathogens ~ Cryptosporidium,
Cyclospora, Isospora & Microsporidia
– Bacterial infections associated with diarrhoea in HIV/AIDS patients include
Salmonella, Campylobacter, Shigella & Mycobacteria
Commensals
■ The NF of the GIT is greatly influenced by DIET
■ Mo’s which may form part of this NF include:
– Coliform bacilli
– Proteus
– Pseudomonas
– Clostridium
– Bacteroides
– Enterococcus
– Lactobacilli
– Also:
■ Mycoplasma
■ Candida sp.
■ A variety of protozoa & viruses
Collection & transport of faeces
■ Faeces should be collected during the acute stage of diarrhoea
In a hospital with a MB Lab
1. Give the patient a clean, dry, disinfectant-free bedpan or suitable
wide-necked CONTAINER to pass a specimen
■ The container need NOT be sterile
■ Ask the patient to avoid contaminating the faeces with urine
2. Transfer a portion (about a spoonful) of the specimen, especially
that which contains mucus, pus or blood into a clean, dry, leak proof
container
Collection & transport of faeces
In a hospital with a MB Lab Cont’d
Worms & tapeworm segments:
■ If present, transfer to a separate container & send
them to the lab for ID
3. Write on the request form the colour of the
specimen & whether it is formed, semi formed,
unformed or fluid.
■ Report also if blood, mucus, worms, or tapeworm
segments are present
4. Label the specimen & send it with a request form
to reach the lab within 1 hr
■ If delay > 1 hr is anticipated, collect the specimen
in Cary-Blair medium
Collection & transport of faeces
In a hospital with a MB Lab Cont’d
Rectal swabs:
■ Only when it is NOT possible to obtain faeces, collect a specimen using
a COTTON WOOL SWAB. Insert the swab in the rectum for about 10
secs
■ Care should be taken to avoid unnecessary contamination of the
specimen with bacteria from the anal skin
Important:
■ When the specimen contains blood or amoebic dysentery is suspected,
deliver it to the lab ASAP
– A fresh specimen is required to demonstrate actively motile
amoebae & also to isolate shigellae
Collection & transport of faeces
In a health centre for transport to a MB Lab
1. Request a specimen from the patient
■ Normal faeces:
– Appear brown & formed or semi formed
– Infant faeces are yellow-green & semi formed
Lab examination of faeces: Day 1
2. Examine the specimen microscopically
SALINE & EOSIN prep to detect E. histolytica & other parasites
■ Place a drop of fresh PHYSIOLOGICAL SALINE on one end of a slide & a
drop of EOSIN STAIN on the other
■ The eosin prep must NOT be too thick otherwise it will NOT be
possible to see AMOEBAE OR CYSTS
Lab examination of faeces: Day 1
2. Examine the specimen microscopically
SALINE & EOSIN prep to detect E. histolytica & other parasites
Cont’d
■ Examine the prep using t X10 & X40 objectives with the
condenser iris closed sufficiently to give good contrast. Look
especially for :
– Motile E. Histolytica trophozoites containing red cells
E.coli
Salmonella
Mixed
culture of
E.coli &
Salmonella
Shigella
Lab examination of faeces: Day 1
3. Culture the specimen Uninoculated
ADDITIONAL
Alkaline peptone water & TCBS agar when cholera is
suspected
■ Inoculate several loopfuls of specimen in alkaline (pH
8.6) peptone water & incubate at 35–37 °C for 5–8 Large, yellow colonies of
Vibrio cholerae
hrs
– Prior enrichment in alkaline peptone water is NOT
necessary if the specimen is likely to contain
large No. of vibrios (e.g. in acute cholera).
– Alkaline peptone water is a useful transport
Much smaller , yellow
medium for V. cholerae colonies of E. faecalis
■ Subculture several loopfuls of the peptone water
culture (taken from the surface) on thiosulphate
citrate bile-salt sucrose (TCBS) agar & Incubate
aerobically at 35–37 °C o/n
Lab examination of faeces: Day 1
3. Culture the specimen
ADDITIONAL
Sorbitol MacConkey agar, when an outbreak of E. coli
0157 is suspected
■ Inoculate a loopful of specimen on sorbitol
MacConkey agar & incubate the plate aerobically at
35–37 °C o/n
Sorbitol MacConkey agar
■ Contains the CHO SORBITOL instead of lactose.
■ E. coli 0157 ~ colourless colonies ~ DOES NOT
ferment sorbitol
■ Most other E. coli strains & other Enterobacteria~
pink colonies ~ ferment sorbitol
■ A useful way of screening for E. coli 0157
Lab examination of faeces: Day 1
3. Culture the specimen
ADDITIONAL
Blood agar & Improved Preston blood-free medium , when
Campylobacter is suspected
■ Inoculate a loopful of specimen on BA/ Preston medium
& incubate the plate at an microaerophilically (atm of
reduced O2 (5–10%) with added CO2 (about 10%)) at
35–37 °C o/n
Blood agar
■ C. jejuni & C. coli produce non-haemolytic spreading,
droplet-like colonies
■ Examine colonies microscopically for Campylobacters &
perform an oxidase test.
Lab examination of faeces: Day 1
3. Culture the specimen
ADDITIONAL
Blood agar & Improved Preston blood-free medium , when
Campylobacter is suspected
Improved Preston blood-free medium:
■ C. jejuni ~ grey, moist, flat-spreading colonies
■ Some strains ~ green hue or a dry appearance with or
w/o a metallic sheen
■ C. coli ~ produces creamy-grey, moist, slightly raised
colonies.
– A swarming growth may occur
■ Examine the colonies microscopically & perform an
oxidase test.
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures
XLD agar culture
■ Look for colonies that could be Shigella or Salmonella.
– Shigella & H2S–ve strains of Salmonella ~ 1–2 mm dia red colonies
– H2S +ve Salmonellae (e.g. strains of S. typhimurium)~ Red colonies
with black centres
■ Proteus, Providencia & Pseudomonas ~ red colonies
■ Some Proteus strains (are also H2S producing ) ~ red colonies with black centres
MacConkey agar
■ Shigellae & Salmonellae & other NLF organisms ~colourless colonies
■ E. coli & other LF ~ produce pink colonies
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures
ID of suspect S&S isolates
■ Perform a urease test using urea broth
– A +ve urease test within 2–4 h indicates that the organism is
probably Proteus. No further tests are required
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures
ID of suspect S&S isolates
■ Perform a urease test using urea broth
– When the urease test is -ve at 4 hrs,
proceed as follows:
1. Perform indole & lysine decarboxylase tests
2. Inoculate a tube of Kligler iron agar
■ Use a sterile straight wire, stab first the butt
& then streak the slope.
■ Close the tube with a cap & incubate at 35–
37 °C o/n
Tests used to identify presumptively S&S
KIA Medium Reactions
Motility Indole LDC Slope Butt Black Cracks
(H2S) (Gas)
SHIGELLAE
S. dysenteriae - D - Red (Alkaline rxn) Yellow (Acid rxn) - -
S. flexneri - D - Red (Alkaline rxn) Yellow (Acid rxn) - -*
S. boydii - D - Red (Alkaline rxn) Yellow (Acid rxn) - -*
S. sonnei - - - Red (Alkaline rxn) Yellow (Acid rxn) - -
SALMONELLAE
S. paratyphi A + - - Red (Alkaline rxn) Yellow (Acid rxn) -* +
S. paratyphi B + - + Red (Alkaline rxn) Yellow (Acid rxn) + +
S. paratyphi + - + Red (Alkaline rxn) Yellow (Acid rxn) +* +
S. Typhi + - + Red (Alkaline rxn) Yellow (Acid rxn) + (Weak) -
Other -* - + Red (Alkaline rxn) Yellow (Acid rxn) +* D
Salmonella
serovars
D= different strains give different results, * A few exceptions
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures
RESULTS
LDC
■ Shigella are LDC -ve. Salmonella serovars are LDC +ve except S. Paratyphi A
which is LDC -ve.
Indole
■ S. sonnei is indole -ve. Other shigellae give variable indole rxn. Salmonella
serovars are indole -ve.
KIA
■ SS ~ pink-red slope & yellow butt
■ Many Salmonellae ~produce blackening (H2S production) & cracks (gas
production) from glucose fermentation
■ S. typhi ~ small amount of blackening & NO cracks in the medium
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures
Serological ID of SS
■ Test any isolate giving rxns suggestive of SS using a slide technique
– Emulsify a small amount of growth from the KIA culture in a loopful
of physiological saline on a slide
– Mix by tilting the slide backwards & forwards for about 30 secs.
– Examine for agglutination against a dark background.
– When there is agglutination (autoagglutination), the strain is
unsuitable for serological testing.
– A NA culture should be sent for further testing to a Reference Lab
■ When there is NO autoagglutination, add one loopful of test antiserum
& mix; examine for agglutination.
■ A +ve test will show strong clear agglutination within 1 min
Lab examination of faeces: Day 2 & Onwards
4. Examine and report the cultures: TCBS agar culture
■ V. cholerae is sucrose fermenting & produces yellow 2–3 mm in dia shiny colonies
with a yellow colour in the medium
– With prolonged incubation (48 h or >) the colonies may become green
■ V. fluvialis ~ sucrose fermenting ~ may occasionally be isolated as a pathogen
■ V. parahaemolyticus is non-sucrose fermenting ~ green-blue 2–3 mm in dia
colonies
■ V. mimicus~ non-sucrose fermenting ~ green-blue colonies & is sometimes isolated
Selectivity of TCBS
■ Very occasionally, Aeromonas sp. & enterococci produce small yellow colonies
■ Proteus strains may produce yellow or yellow-green colonies with black centres
■ Some Pseudomonas strains form small green colonies.
Lab examination of faeces: Day 2 & Onwards
4. Examine & report the cultures
Identification of a suspect V. cholerae isolate
■ Examine a Gram stained smear of the culture for Gram negative vibrios
– The organisms may appear less curved after culture.
■ Subculture the organism on a slope of NA (use a heavy inoculum) & incubate for 4–6
hrs.
■ Perform an oxidase test on the NA culture
– It is not possible to perform an oxidase test directly from a TCBS culture b/c the
acid produced by the sucrose fermenting colonies will inhibit the oxidase rxn
– Sub culturing to nutrient agar is also required to perform serological tests
reliably.
■ Note: When the oxidase test is +ve, presume the isolate to be V. cholerae
– Tested serologically (using NA culture) to confirm the organism is V. cholerae 01
or 0139
Summary of the MB Examination of Faecal Specimens
DAY 1
ADDITIONAL INVESTIGATIONS
1. Describe Specimen Report
– Colour
– Whether formed, semi formed, unformed, fluid
– Presence of blood, mucus, pus
– Presence of worms