Evaluation Of Diagnostic Methods for Detection and Isolation of Helicobacter Pylori in Gastric Biopsy and Stool Specimens of Dyspeptic Nigerians

Summary

The current trend in the diagnosis of H. pylori infection is to move from invasive diagnostic methods to a non – invasive method. This study was carried out to compare the available methods of diagnosis of Helicobacterpyloriinfections. Stomach biopsy, stool, and blood samples of participants were subjected to analysis for H.pylori infection, using Gram stain, Polymerase Chain Reaction (PCR) , Urease test, serology, Stool Antigen test, stool and biopsy cultures. Of the 320 patients studied, 198 (61.8%) were H. pylori positive by direct Gram’s stain and urease (CLO) positivity was found in 134 (41.8%). A total of 272 (85%) were seropositive for H. pylori 1gG, while H. pylori was isolated by culture from biopsies of 67 (20.9%) and stools of 40 (12.5%) patients. Helicobacter pylori antigen (HpSA) was also detected in 234 (73.1%) patients and while PCR detected positivity in 162 (50.6%) of the participants. The results from this study showed 100% sensitivity using serology and HpSA. Using stool culture, the positive predictive value and specificity was also 100%. Serology showed the highest negative predictive value (100%) while stool has the highest false negative rate of 60.9%. A combination of HpSA, stool culture and serology was found suitable for the detection of H. pylori infection in our environment and no single test was found to be best diagnostic method.

Keywords:Helicobacterpylori, diagnostic methods, biopsy, stool, dyspeptic.

Introduction

Helicobacterpyloriis the commonest bacterial infection worldwide 1,2,3. Thus, there is a considerable interest in diagnostic

methods for Helicobacterpyloriinfection both before and after treatment 4.

Detection of Helicobacterpyloriinfection in patients undergoing upper gastrointestinal endoscopy is required as evidence to start eradication treatment in those with peptic ulcer disease and non-ulcer dyspepsia5. There are several reliable methods for detecting Helicobacterpyloribut all have the disadvantage that include cost and time required to yield definitive result 6,7.

In general, all diagnostic tests have a 5 – 10% false positive or false negative rate and only by combining diagnostic tests do we come close to a true gold standard8. Most of the time, investigators do not always agree on the best standards against which to validate a test. There has been much interest in tests that provide information over and above merely the presence of Helicobacter pylori, for example tests that indicate whether antimicrobial resistance or certain virulence factors are present. There are, however, many pitfalls. In the Western world only 5 – 10% of individuals are infected with two or more different H.pyloristrains. In the developing world, where the prevalence of overall infection is higher, multiple strain infection are common9. There are large differences in strains around the world9 and, because of this micro diversity, molecular techniques may not be suitable for global use10. Diagnostic methods for Helicobacter pyloriinfection may be invasive or non- invasive4,11.

To confirm the presence of Helicobacterpylori infection, mucosal biopsy specimens obtained during upper gastrointestinal endoscopy could be cultured, examined histologically or used for urease test and polymerase chain reaction. Non-invasion

tests like urea breath test, Helicobacter pylori Stool Antigen test (HpSA) and serology are more convenient.

The H.pyloristool assay and the Helicoblot, immunoblot kit are two new non-invasive tests that are now commercially available12. Most of these tests have sensitivities and specificities greater than 90% 7,12,13 but there is a lack of agreement on any single test as the gold standard7. Most investigators classified patients as H. pylori positive on the basis of a positive culture or a combination of positive histology and urease test or any two positive tests or on the “a posteriori” based empirical interpretation of results described by 12,13. The proposed independent gold standard by the stipulation that any positive test had to be confirmed by at least one other positive test is arbitrary, but satisfactory7. A variety of tests are now available to diagnose H.pyloriinfection. The choice of diagnostic test for assessing H. pylori status is dictated by clinical considerations, the need for endoscopy, reliability, specificity, sensitivity, cost, local access and expertise. As a general rule, physicians should choose a test that has the best accuracy for the level of testing expertise available.

However, the “gold standard” for the diagnosis of H. pylori infection is growth of the pathogen in cultures, thus requiring gastric biopsy specimens obtained by invasiveuppergastrointestinal endoscopy15. This proves a bit difficult among children and younger patients with dyspepticsymptoms.Therefore,

noninvasive tests are of major importance for evaluation of such patient's status most importantly after treatment. This study was carried out to compare the available methods of diagnosis of Helicobacter pyloriinfection using both the invasive and non invasive methods/samples.

A variety of tests are now available to diagnose H. pylori infection. Therefore, the diagnostic methods for H. pyloriinfection are classified under methods requiring endoscopy such as histological examination of gastric tissue, bacterial culture, rapid urease testing, use of DNA probes and PCR analysis on gastric biopsies / tissue. These methods incur expenses and a risk and slight complication due to the procedure.

On the other hand Urea breath tests, serology, gastric juice PCR, urinary excretion of [15N] ammonia and EIA for H. pyloriantigen in stool (HpSA) and stool culture are non-invasive tests that do not require endoscopy. Other assays include HpSA-EIA (H. pylori Stool Antigen – Enzyme Immunosorbent Assay), collection of blood or urine to measure substrate metabolism by H.pylori16, similarly, the measurement of 14C in the urine has been reported to accurately reflect H.pyloristatus17.

However, none of these methods has been completely standardized, and they do not confer significant advantage over the previously described diagnostic methods.

Existing antimicrobial therapy is not always completely effective against H.pyloriinfection. As a result clinicians may wish to determine if the patient has been cured of

H. pylori after treatment. Most of the test for the initial diagnosis of H. pylori can also be used for post treatment diagnosis. In general, evaluating for a cure of H. pyloriwith tests that assess the actual bacterial load (UBT and biopsy methods) should not be performed less than 4 weeks after therapy18. This is because up to 4 weeks after treatment that ultimately is shown to have failed, it may not be possible to detect

H.pyloridue to ‘suppression’ or reduction of bacterial load. This phenomenon has been termed ‘clearance’. A prolonged time is (more than 4 weeks) required to allow suppressed populations to re-grow to their original densities in the mucosa.

Materials and Methods Study Population

Three hundred and twenty participants presenting with varying degrees of gastroduodenal pathology from two major hospitals in Lagos were involved in the study, Lagos University Teaching Hospital (LUTH) and Lagos State University Teaching Hospitals (LASUTH). Patients presenting with symptoms relating to peptic ulcer disease such as (heartburns, acute pepperish pain, stomach pain and hotness, constipation) and or gastritis attending gastroenterology clinic and are ready to participate in the study were recruited.

Collection of Samples

All patients were properly consented and signed an informed consent form containing a full explanation of the work. Where the patient could not read, this was interpreted, in addition ethical approval

was obtained for the study. The patients underwent day case gastroscopy using an Olympus® GIF - Q30 fully immersible gastroscope under diazepam sedation with the help of gastroenterologists after due consent. Before endoscopy, blood and stool samples of the patients were taken for detection of H.pyloriIgG antibodies, Helicobacterpyloristool antigen (HpSA) detection test and culture respectively.

Diagnosis

Biopsy Specimens

Three gastric mucosal antral biopsy specimens were collected from each of the dyspeptic patients that underwent gastroscopy within the study period. The first sample of the biopsy specimens was used for culture, the second for CLO test (Campylobacter-Like Organism test) and the third for Gram stain, while the remaining biopsy from culture was used for performing the PCR work.

Blood specimen

Blood samples were taken from the patients prior to endoscopy. This was done with the aid of sterile needle and syringe and the blood was allowed to clot, to extract the serum. Sera were used for the serological test.

Stool specimen

A sterile wide open screw-capped-spoon- attached cover plastic universal containers was provided for the participants to collect their stool sample. Fresh stools were used for the detection of H.pyloriantigen and isolation.

Urease (CLO test)

This was performed using the CLO test kit. This is a commercially available “Campylobacter – like organism (CLO) test kit from Delta West, Australia, designed to test the rapid urease production ability of H. pylori.

It is a semi-solid urease medium enclosed in a well and securely sealed. The medium was inoculated directly with the stomach biopsy sample by carefully immersing the biopsy in the middle of the semi – solid medium with the aid sterile needle and sealing up. Before use, the kit is usually warmed up to body temperature and after inoculation, kept close to the body (e.g in a laboratory coat pocket) until the result is read at exactly 15 minutes. A positive result is shown by a pink coloration of the medium from the original yellow color. (Figure 1)

Figure 1.

KEY: A: Positive CLO test (Pink coloration of the urease medium); B: Negative CLO test (Retention of the initial yellow color of the urease medium); C: The back of the CLO test kit used for appropriate sample labeling

Polymerase Chain Reaction (PCR):DNA Extraction

The biopsy sample were ground for 2 – 3 sec with an electric tissue homogenizer (Ultraturax; LaboModerne, Paris, France) and centrifuged for 5 mins at 10,000g to release the bacteria from the tissue. The pellet was resuspended in 300 μl extraction buffer (20mm Tris/HCl, pH 8.0,0.5% Tween 20) and proteinase K was added at a final concentration of 0.5mg/ml to destroy any proteins present. The mixture was incubated at 56oC for one hour. Finally the enzyme was inactivated by boiling for ten minutes19. Five microliter of DNA was used as template for each PCR . Each sample was examined by three different PCRs. Primers used were from vac A ( 259bp) , glm M (294bp) and ure I ( 600bp).

PCR amplification

The following thermocycling parameters were used; 93oC for 2 mins, and 35 cycles of 93oC for 10 sec; 49oC for 10 sec; 72oC for 1.5 mins. And 1 cycle of 72oC for 10mins, 8oC (hold) 10mins. The amplification was done in a 50 μl reaction volume, with 5 μl of DNA used as the template for each PCR, in Gene Amp 9700 (Perkin Elmer) Machine.

Visualization of reaction products

Reaction products were visualized by running 10 μl of the reaction mixture on a 1.2% agarose gel, stained with ethidium bromide.

There were two controls, water and H.pyloriisolate.

A biopsy is adjudged positive for H. pylori if 259bp DNA fragment from H.pylorichromosomal DNA, 600bp DNA fragment and 294bp DNA fragment were amplified with vacA, Ure I and glmM primers.

Serology

For the detection of H.pylori 1gG antibodies, an indirect solid-phase enzyme immunoassay (EIA) test kit (ImmunoComb II, orgenics, Israel) was used.

A sample was considered positive if a spot had an intensity equal to or greater than that of the positive control (anti – H. pyloriIgG), indicating the presence of IgG antibodies to H.pylori(> 20 units/ml). Negative results were indicated by a spot with intensity less than that of the positive control, and an upper spot on the negative control. The kit used was equipped with a CombScanTm reflectometer, which enabled rapid and objective measurement (as relative absorbance) of the colour intensity of spots.

Gram reaction

This was done using the method of Preston and Morell20. A positive result is indicated by the presence of Gram negative spiral shaped organism under the cells lining the stomach mucosal wall, visualization being aided by the teasing procedure employed prior to staining, under the light microscope.

Media for isolation

Primary isolation of the organism was performed on Modified Belo Horizonte and Dent's medium 21,22. The media consist of brain heart infusion agar base

supplemented with 10% sheep blood and Dent’s supplement (10mg of vancomycin, 5mg of trimethoprim, 5mg of Cefsulodin and 5mg of Amphotericin B per liter) Oxoid, SR 147E with 40mg of Nitro-Blue Tetrazolium salt per liter to aid easier identification of H. pylori on media21. The stools were emulsified in phosphate buffered saline with the addition of 1gram of cholestyramine to dissolve the bile in the stool23,24 prior to culture.

Helicobacter pylori Stool Antigen test(HpSA)

Stool Culture

The stool sample was emulsified in phosphate buffered saline (PBS) and pre- treated with 1g cholestyramine to remove the bile that might inhibit H.pylori. This suspension was then cultured on prepared culture media as described above. The resulting isolated organism was identified using rapid urease production (using Homemade urease test -HUT)25 oxidase, catalase; hippurate hydrolysis and Gram’s stain reaction.

Biopsy Culture

The biopsies were teased with sterile needle, thereafter primary isolation of the organism was performed on Dent’s medium22 as described above.

Isolation Procedure

The inoculated plates were incubated in 100% humidity at 37oC for up 12 days (precisely 3 – 12 days) in microaerophilic condition specifically in carbon dioxide extinction candle jar and gas pak, before discarding if there is no growth.

The agar plates were checked for growth from day 3 through day 12. An isolate was identified as H.pylorion the basis of positive catalase, oxidase and urease reaction. Typical colonial morphology of small, round and greyish colonies were diagnostic and the presence of characteristic curved Gram negative short rods on Gram Stain. Other biochemical test such as Hippurate test was also used to identify the organism, H. pylori is Hippurate negative.

Results

Demographic characteristics and assay results for H. pylori infection using different methods:

Threehundredandtwentydyspeptic patients (166 males, 154 females, mean age

38.5 years (+10.8 SD, age range 10 – 85 years) were included in the study.

Of the 320 patients examined, 198 (61.8%) were H.pyloripositive by direct Gram’s stain and urease (CLO) positivity was found in 134 (41.8%). A total of 272 (85%) were seropositive for H.pylori1gG, while H.

Figure 2.

pyloriwas isolated by culture from biopsies of 67 (20.9%) and stools of 40 (12.5%) patients, predominantly from patients in the age range of 30-39 years. Helicobacterpyloriantigen was also detected in 234 (73.1%) patients and Polymerase Chain Reaction (PCR) detected H.pyloripositivity in 162 (50.6%) of the participants (Table 1)

(Figure 2).

Number of ulcer/gastritis cases positive for

H. Pylori using the six different methods of screening/ isolation

The results from the six different methods showed that stool antigen test (HpSA) showed a higher rate of positivity (73.1%) after serology (85.0). Only 12.5% were positive through stool culture, while 20.9% were positive using the biopsies. PCR showed 50.6% positivity compared to Gram stain where 61.8% were positive. (Table 2). The differences in the results was tested

Figure 3.

Fig. 2: Pictogram of the assay results using the different diagnostic tests.

statistically and found to be significant (Confidence interval (CI) of 97.5-100.0) (Figure3)

Figure 4.

Detection of H. pylori by culture compared with other diagnostic methods (serology, gram reaction PCR, urease test and HPSA).

The results from this study showed 100% sensitivity using serology and HpSA. Using stool culture, the positive predictive value and specificity was also 100%. Serology showed the highest negative predictive

value (100%) while stool has the highest false negative rate of 60.9%. The sensitivity, specificity, positive predictive value (PPV) and negative predictive value (NPV) for culture, compared with the other five different methods are shown on Table 3.

Figure 5.

Figure 6.

Distribution of positive diagnostic tests among the studied participants

In this study according to the predefined diagnosis of infection which includes any two or more positive tests, with culture standing out as Gold standard 280 (87.5%) patients were H.pyloripositive and 40 (12.5%) patients were H.pylorinegative. Majority (16.3%) of the patients had stool

culture, HpSA, and serology positive. Forty– one (12.8%) had HpSA and stool culture positive. In five (1.5%) patients only stool and biopsy culture were positive, they were therefore considered H.pyloripositive, while 10 (3.1%) had only serology positive and were considered H. pylori negative. No test was positive in 9 (2.8%) patients (Table 4).

Figure 7.

Discussions

This study shows that no single test alone can be regarded as the best diagnostic method for detecting H. pylori infection in dyspeptic patients in this environment. This is because except for serology and HpSA, which was able to detect H. pylori in only 3.1% and 5.0% of the patients and culture in 1.5% (stool culture and biopsy culture) of the patients, no other test was positive alone in the detection of H. pylori among the participants.

From the study, the best detection methods could be stool culture, HpSA and serology which detected H. pylori in 52 (16.3%) of the 320 patients. That means a patient can be defined as positive for H. pylori, even if the biopsy culture was negative, but stool culture, HpSA and serology tests were positive.

Stool culture had a sensitivity of 71.3% and specificity of 100% (when compared with other techniques). Other studies have shown culture to have a lower sensitivity for detecting H. pylori infection26,27. Many cases considered negative using urease test (CLO test) were seen to be positive using Gram stain and serology. This could be due to certain limitations to the urease test method; such as: a) the presence of some isogenic urease negative mutants reported by Dunn et al.,28; b) the fact that H. pylori is not the only urease positive organism that could be encountered in the oropharygeal tract, thus suggesting that some CLO positive results might have not been caused by H.pylori.But the Gram stain is however not limited by these factors, so is the serology test.

With a sensitivity of 57.0% and specificity of 65.9%, urease (CLO) test cannot be used for detecting H. pylori infection alone, although it has the advantage of having the ability to yield a positive result within 24 hours. This is in contrast to some earlier studies which tend to give a satisfactory sensitivity and 100% specificity 6,7,12 to the urease test.

Gram reaction of the biopsy is one of the methods adjudged by this study to be suitable to diagnose H. pyloripositivity in dyspeptic patients. The method combines a lot of advantages among which includes the fact that the ingestion of anaesthetics and loss of viability of the organism during transportation does not have any effect on Gram stain detection of H.pylori,which grossly affected the recovery of the organism through culture29. Apart from all these factors, the Gram reaction is simple to perform, fast and cheap compared to other methods of detecting H.pyloriinfections in patients. The method does not involve the use of any complicated histology equipment such as the microtome (histological staining process) or PCR which requires a capital intensive PCR machine (thermocycler) or the serological method that makes use of expensive kits.

Elsewhere, endoscopic tests have been adjudged the best for the primary diagnosis of H. pylori infection because they allow for assessment of treatment indications30,31. However, culture is not recommended for routine evaluation, but it is important in populations with high prevalence of

treatment failure, especially when antibiotic resistance patterns of the organisms have to be assessed4. Nevertheless, the biopsy– based tests may suffer from sampling error because of the patchy nature of H. pyloriinfection, but this is of minor clinical importance7. The best gastric site for obtaining a positive test is the gastric angle32,33,whereasmost gastroenterologists are not that specific in obtaining biopsies. In patients who recently used therapeutic doses of antibiotics, bismuth salts and proton pump inhibitors, endoscopy should be deferred for one to four weeks to allow return of bacterial density to detectable levels4.

Serology has been used for initial pre- endoscopy or pre-treatment screening in dyspeptic patients31,34,35. Nevertheless , it is of utmost importancethat the performance of serological kits be validated locally35.

In the present study, 85% of patient were seropositive by EIA, the majority (75%) having 1gG antibody titres > 160 units / ml. Endoscopic study have shown that this antibody prevalence is due to active H.pyloriinfection and is almost always associated with antral gastritis in both dyspeptic patients and asymptomatic this study. It is however, suggested that there could be significant false positivity of the serological test, because of its inability to detect true H.pyloriinfection, being hampered by cross-reaction 37. Another possibility is that 1gG antibody titre to H.pylori could be high among Nigerians, as a result of past exposure. However, the latter would appear more likely and is supported by the work of Holcombe etal, 38 on a Nigerian population, and by Us and Hascelik,39who used EIA to study H. pyloriseroprevalence in Turkey, both in a healthy population and patients with acute gastritis and duodenal ulcer40,41. The usefulness of serology as a tool for pre – and post- treatment diagnostic and epidemiological investigation has been evaluated42, and 95% specificity was found in trained hands. In this study when serology was compared with culture, Gram’s stain, urease and PCR using the Mc Nemar’s test, a statistically significant difference (P < 0.0001) was observed.

Polymerase Chain Reaction has revolutionized molecular biology research and is currently broadening considerably the field of microbial diagnosis, including diagnosis of H.pyloriinfection. Nevertheless, there is still a potential for increasing its sensitivity43. Several studies controls .An antibody prevalence rate of 39% in an area of Western Nigeria, among apparently healthy individuals was reported by Olusanya 37. This rate is relatively low compared with that found in another study by Holcombe et al., 1994 who reported 80% prevalence in Northern Nigeria. The latter result is in consonance with the findings in comparing PCR detection (amplified

products being detected by gel electrophoresis) with other diagnostic methods have been performed44,45,46. The results of these studies show that PCR can compete as an alternative diagnostic technique with culture, which is considered today as the gold standard. From this study it is as sensitive as culture for primary detection of H. pylori and supposedly can give better results at treatment follow-up47, when the number of bacteria in the gastric mucosa is usually small and the organisms may go undetected by other diagnostic methods.

The sensitivity of 86.0% and specificity of 75.4% obtained with PCR in this study have shown that PCR has the potential to be used for detection of H.pyloriin our environment, as it far surpasses the culture and urease tests techniques. This has been confirmed by Wisniewska et.al.,44and Rimbara et.al.,46. Polymerase Chain Reaction also provide a quick result48, avoid the need for specific temperature conditions for transport of specimen, and in case of shortage in power supply during the process of amplification, all the experiment is not lost, because it can be repeated. It has also been found useful for correctly identifying infections caused by H.pylori19,46and can be easily adapted in our Laboratory for diagnostic and other purposes where constant power supply is elusive. The limitations being the fact that the equipment could be capital intensive to set up and it can only detect the DNA of the bacteria not withstanding whether the bacterial cell is viable or living or non-viable.

The current trend employed in the detection of H.pyloriinfection is to move from an invasive diagnostic methods to a non – invasive method. Though, the methods that have been earlier employed used endoscopy or

gastroscopy where biopsies sample are collected from patients. However, a reliable noninvasive stool test for detection of H. pylori could have a large impact on the handling of patients with epigastric pain. In our study, detection of H. pylori by the stool antigen test (HpSA) revealed a level of sensitivity similar to that seen with the serology and a higher level of specificity (69.2%) when compared with other tests except PCR which is biopsy based (invasive test). The use of at least two out of three diagnostics tests as a gold standard for the diagnosis of H.pylori had been proposed earlier by others7, therefore a combination with tests with higher sensitivity and specificity is desirable for diagnosis of H.pylori.

In contrast to endoscopy (biopsy based tests), stool tests have the advantage that they do not require the patient to fast before coming to the hospital. It is also easier to produce stool samples than biopsy. For follow-up screening, patients can send their stool samples directly to the microbiology laboratory; thus, less absence from work is necessary. In addition, there is a lower financial burden for the patient or the public health system (in Nigeria, the cost of endoscopy is about ₦35,000 versus ₦5,000 for the stool antigen test and or culture).

The prevalence rate of 20.9% and 12.5% (by biopsy and stool culture respectively) of H.pyloriinfection obtained in this study showed that H.pyloriis a contributing factor to gastritis and ulcer in this part of the world. Therefore, from this study and some others before now, we now know that many ulcers result from a bacterial infection, which are readily curable by treatment with antibiotics. Thus indicating that prevention of the spread of the organism through improved hygiene and antibiotic treatment of the organism during infection, will go a long way in reducing the burden of gastritis and peptic ulcer in this environment.

Pertaining to early diagnosis of the infection, considering invasive methods, Gram stain reaction seems to be the best method. It is least expensive and faster than the other diagnostic procedures. For good epidemiological survey, serology is the best method of diagnosis, but may be considered invasive. The use of PCR methods may also be considered. It combines the advantage of being fast with reduction of false negative results. However, considering the HpSA assay and stool culture from the non invasive methods, they seem to combine a lot of advantages that can help reduce the hurdle associated with gastroscopy such as economic loss of time, price and inconvenience coupled with the price of the fragile endoscopes. Hence HpSA, stool culture and serology could be adjudged the best diagnostic method based on this premise.

However, culture, which is the most definitive method of diagnosis, has low sensitivity. Other methods therefore have to be combined with it to facilitate the detection of H.pyloriinfection.

Before a patient can be considered positive for H.pyloriinfection, these three test; HpSA, stool culture and serology must be positive. Although, all the tests mentioned have their limitations, their various sensitivities and specificities will give a reliable result and diagnostic value in detecting H.pyloriinfection.

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