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The common enteric bacterial pathogens and their antimicrobial susceptibility pattern among HIV-infected individuals attending the antiretroviral therapy clinic of Hawassa university hospital, southern Ethiopia
Antimicrobial Resistance & Infection Control volume 6, Article number: 128 (2017)
The frequent occurrence of bacterial gastroenteritis among HIV-infected individuals together with increased antimicrobial drug resistance pose a significant public health challenge in developing countries. This study aimed to determine the prevalence of enteric bacterial pathogens and their antimicrobial susceptibility pattern among HIV-infected patients in a tertiary hospital in southern Ethiopia.
A hospital-based cross-sectional study was conducted at Hawassa University Comprehensive Specialized Hospital from February to May, 2016. A consecutive 215 HIV-infected patients, with complaints of gastrointestinal tract disease, were enrolled. Data on socio-demography and related factors was collected using a structured questionnaire. A stool sample was collected from each study participant and cultured to isolate enteric bacterial pathogens; isolates were characterized using biochemical tests. Antimicrobial susceptibility was determined using the Kirby- Bauer disk diffusion technique.
Out of 215 patients, 27(12.6%) were culture positive for various bacterial pathogens. Campylobacter species was the most common bacterial isolate (6.04%), followed by Salmonella species (5.1%). The majority of isolates was sensitive to norfloxacin, nalidixic acid, gentamicin, ceftriaxone and ciprofloxacin and showed resistance to trimethoprim sulfamethoxazole (SXT) and chloramphenicol. Consumption of raw food was the only risk factor found to be significantly associated with enteric bacterial infection (crude odds ratio 3.41 95% CI 1.13–10.3).
The observed rate of enteric bacterial pathogens and their antimicrobial resistance pattern to the commonly prescribed antibiotics highlights the need to strengthen intervention efforts and promote rational use of antimicrobials. In this regard, the need to strengthen antimicrobial stewardship efforts should be emphasized to slow grown antimicrobial resistance among this population group.
Human immunodeficiency virus (HIV) associated immunosuppression increases the vulnerability of patients to various infections . Enteric bacterial pathogens such as Salmonella species, Campylobacter species, Shigella species, Clostridium difficile and different strains of Escherichia coli have been identified as etiologic agents with the potential to cause severe illness in HIV-infected patients [2, 3]. Symptoms, duration and potential for severe manifestations of enteric bacterial infections are influenced by many factors including immunity status (measured by CD4+ T cell count) and the use of highly active antiretroviral therapy (HAART) and prophylaxis. Previous research showed that patients with lower CD4+ T cell counts are more likely experience bacterial diarrhea . Bacteremia due to Salmonella, Campylobacter and Shigella was also more common in those with lower CD4+ T cell counts [5, 6].
Gastrointestinal tract (GIT) illnesses such as diarrhea affect up to 95% of persons with AIDS, frequently causing malabsorption, significant weight loss, higher rates of extra-intestinal infections, and increased mortality in developing countries . The introduction of HAART and prophylactic management of opportunistic infections has brought substantial improvements in health and life expectancy of PLHIV. Several reports from developed countries have shown the decline in diarrheal episodes (specifically bacterial diarrhea) [4, 6]. However, these protective roles of HAART were not demonstrated in some other studies [3, 8].
An increasing rate of bacterial resistance to drugs commonly used to treat enteric infections further complicates the management of disease in PLWHIV. Due to the frequent exposure to antibiotic therapy and prophylaxis, HIV-infected patients might carry resistant bacterial strains . In some studies, enteric bacterial pathogens with higher rate of resistance to antimicrobials were isolated from PLWHIV [10, 11].
In Ethiopia, information about the epidemiology of enteric bacterial pathogens in PLHIV is scant. A study that investigated HIV-infected patients in the southwest part of the country (Jimma) during the pre-HAART period showed bacterial pathogens such as Salmonella, Shigella, Campylobacter and E. coli were common . In the same study, isolates were found to be less sensitive to tetracycline, chloramphenicol, gentamicin, and nalidixic acid. The present study aimed to identify bacterial pathogens and their antibiotic susceptibility pattern among HIV-infected patients attending a largest hospital in southern Ethiopia. The findings of this study will help generate evidence to inform antimicrobial stewardship efforts, and provide location –specific comparator information for similar studies undertaken in other populations.
Study design and setting
A hospital-based cross-sectional study was conducted at Hawassa University Comprehensive Specialized Hospital (HUCSH) from February to May, 2016. The hospital is situated at Hawassa, the capital city of the Southern Nation, Nationalities and Peoples’ Region. The hospital is the largest in the administrative region with bed capacity of 400. The antiretroviral therapy (ART) clinic in the facility offers treatment service for new and follow-up HIV-infected clients. Clinical and immunological assessments (CD4+ T cell count) at enrolment and at three-monthly intervals help determine patients’ eligibility for HAART. HIV-infected patients with clinical indications of GIT diseases are routinely investigated for intestinal parasites in the hospital. Stool bacterial culturing is not performed on routine basis.
The study population consisted of HIV-infected patients attending the ART clinic at HUCSH during the study period and presenting with signs and symptoms of GIT disease. Patients aged <18 years, or who could not provide a stool sample or who had taken antimicrobial treatment (except trimethoprim-sulphamethoxazole (SXT) prophylaxis) within two weeks prior to the time of data collection were excluded.
Sample size and sampling technique
The sample size was estimated using a single proportion formula, and assuming a prevalence of enteric bacterial infection in HIV- infected patients of 16% , 95% level of confidence and 5% margin of error. A convenient sampling technique was used to enroll study participants, in which consecutive HIV-infected patients eligible for enrollment were invited to participate.
Socio- demography and clinical data
A structured questionnaire was used to collect socio-demographical (age, sex, residence, educational status) and other related factors (hand washing practice, habit of consuming raw food, own domestic animals, availability and usage of latrine, source and treatment of water for drinking). Patients were also asked for complaints of diarrhea (passing three or more loose or liquid stools over a 24-h period). Data on recent level of CD4+ T cell count, HAART status and prophylactic usage of SXT was obtained from patients’ medical records.
Bacterial isolation and characterization
A single stool sample was collected from each study participant using a sterile and disinfectant-free container. Stool samples were cultured on MacConkey (MAC) and Xylose Lysine Deoxychocolate (XLD) agar media after enrichment on Selenite-F Broth (Oxoid, United Kingdom). Further, blood free Campylobacter selective agar with Cefoperazone, Amphotericin B and Teicoplanin (CAT) selective supplement (Himedia, Ltd) was inoculated for isolation of Campylobacter species XLD and MAC agar plates were incubated aerobically at 37 °C for 24 h. Agar plates for isolation of Campylobacter species were incubated under microaerophilic conditions (5–10% O2 and 10% CO2 concentration) at 37 °C for 48 h. To create microaerophilic condition, the inoculated agar plates were kept in a gas jar containing gas generating kit (Campy Gen™, Oxoid, United Kingdom). Isolates were characterized using biochemical tests. Serotyping was performed for Salmonella, Shigella and E. coli using commercial anti-sera.
Antimicrobial susceptibility test
Antibiotic susceptibility testing was performed using the Kirby-Bauer disc diffusion method according to the recommendation of the Clinical and Laboratory Standards Institute (CLSI) (CLSI, 2011). In brief, 1–3 similar bacterial colonies were inoculated into a nutrient broth to prepare inoculums; broths were incubated at 37 °C for 4 h. Turbidity of broths was standardized at 0.5 McFarland using sterile phosphate buffered saline (pH, 7.2). The standardized suspension was inoculated on Mueller-Hinton agar plates. Defibrinated sheep blood (5%) was added for susceptibility testing of Campylobacter isolates. Antibiotic discs representing commonly prescribed antimicrobials in the study area were tested; these included chloramphenicol (30 μg), ciprofloxacin (5 μg), trimethoprim-sulfamethoxazole (1.25/23.75 μg), erythromycin (15 μg), gentamicin (10 μg), nalidixic acid (30 μg), norfloxacin (30 μg), tetracycline (30 μg), and ceftriaxone (30 μg). Plates were incubated aerobically at 37 °C for 16–18 h; the incubation for Campylobacter species was done under microaerophilic condition for 48 h. The diameter of inhibition zone was measured using a caliper and interpreted according to the standard (CLSI, 2011). A reference strain of E. coli (ATCC-25922) was tested as a control.
Data entry and analysis were performed using SPSS Version 20 software. Results were summarized using percentages and frequencies. Binary logistic regression analyses were performed and crude odds ratio with 95% confidence interval (CI) were calculated to measure the strength of association between the dependent and independent variables.
Participants’ socio-demographic and clinical profile
A total of 215 HIV-infected individuals were enrolled in this study. The participants’ mean age was 30.3 years (range, 18–55 years). The most common age group represented was those aged 45 to 54 years (34.8%). Of the study participants, 52% were females and 68.8% were residents of urban areas (Table 1). HIV infected individuals with a CD4+ T cell count ≤350 cells/mm3 accounted for 41.7%. Within this group, 91.8% were taking SXT prophylaxis. The remaining individuals had either discontinued or had not started taking the prophylaxis. The majority of the respondents (66%) received HAART with the mean duration of treatment having being 39 months (range 2–84 months). Participants who reported having diarrhea accounted for 47.4% (Table 2).
Bacterial profile and distribution
Laboratory analysis of the stool samples showed that 12.6% of the study participants had at least one enteric bacterial pathogen. The most frequent isolates were Campylobacter species (6.04%), followed by Salmonella species (5.1%). The rates of Shigella species and enterohaemorrhagic E. coli (EHEC) were 1.3% and 0.9%, respectively. The majority of isolates (80%) was detected among participants who reported having diarrhea at the time of data collection (Table 3).
As presented in Tables 1 and 2, the association between diarrhea status and rate of enteric bacterial isolate was found to be statistically significant, which participants with diarrhea had a higher proportion of enteric bacterial pathogens than participants without diarrhea (crude odds ratio (COR) 4.62; 95% CI 1.78–11.98).
The associated risk factors with enteric bacterial infections
The majority of the study participants used protected water sources for drinking (88.2%), owned a private latrine (95.8%), and consuming raw food (65.6%). The bacterial isolation rates were higher among participants, who sometimes used soap to wash hands at key hand washing times (15.4%), consumed raw food (16.3%), owned domestic animal at home (15.8%), and had no private latrine (22.2%). Only consumption of raw food was found to significantly increase the risk of having enteric bacterial infections among HIV-infected individuals (COR 3.41; 95% CI 1.13–10.3) (Table 4).
Antimicrobial susceptibility pattern
It was observed that 8 of 13 tested Campylobacter isolates were found to be resistant to trimethoprim-sulfamethoxazol. Moreover, 8 of 11 Salmonella isolates were resistant to trimethoprim-sulfamethoxazol and chloramphenicol. The majority of isolates was sensitive to norfloxacin, nalidixic acid, gentamicin, ceftriaxone and ciprofloxacin (Table 5).
A compromised immunity resulting from HIV infection hampers the intestinal defense against microbes. Consequently, enteric bacteria are common and more likely to cause diarrhea and other invasive conditions in HIV-infected patients than healthy individuals . The rate of enteric bacterial isolates in the present study was shown to be 12.6%. A similar rate (16%) was reported in a previous study in southwest Ethiopia (Jimma) , and other settings outside Africa, including Cambodia (12.5%)  and Peru (14.5%) . Rates reported in Uganda (19.2%)  and India (29%)  were higher than our findings. The rate of bacterial isolation among patients with diarrhea (22.5%) in the current study was comparable to findings in Peru (22%) , Thailand (17.4%) , and Uganda (21%)  but lower than rates reported from India (44%)  and South Africa (43.3%) . The observed differences in rates of bacterial isolation could be attributed to differences in risk factors in various populations. The number of patients with diarrhea included in different studies could also affect the rate of enteric bacterial isolates as it was shown in the present study that majority of the pathogens (80%) were isolated from those patients who reported having diarrhea.
The predominance of Campylobacter species in the present study was similarly reported in South Africa  and England  although this bacterium was not isolated in other studies that employed similar laboratory technique [14, 16]. The rates of Campylobacter species in Uganda (3.5%) , in Peru (1.7%) , and in Brazil (1%)  were shown to be lower than our observation. The rate of Salmonella infection (5.1%) in the present study was higher than a finding in Peru (1%) , but lower than a result from Uganda (8.1%) . The rate of Shigella species (1.3%) was also comparable with findings in India (1%)  and Cambodia (1.3%) , but lower than a result in Uganda (9.5%) . The predominance of S. flexineri was consistent with results in Thailand and USA [4, 17]. Similar to the studies reported elsewhere [17, 20], only EHEC strains (O26:H11 and O48:H21) was identified in the present study even if reports [19, 21] on other strains of E. coli were also documented.
The occurrence of enteric bacterial infection in HIV-infected individuals is thought to be the net effect of socio-demographic as well as clinical status of the infected patients. Factors like hand washing practice, contact with pet animals, consumption of raw food and others have been indicated as potential factors for acquiring enteric bacterial infection . In the current study, only a habit of consuming raw food was found to increase the odds of having enteric bacterial pathogens.
It was previously reported that a higher rate (80%) of enteric bacterial isolates among patients with CD4+ T cell count <200 cells/mm3 . In contrast, the current study showed no significant difference in the rate of bacterial isolates among patients with CD4+ T cell count above and below 350 cells/mm3. Similar finding was reported in a study from England where 65.6% of the isolates were detected among patients with CD4+ T cell count >350 cells/mm3 .
The role of HAART in protecting against enteric infection through inhibition of viral replication and restoring immunity has been well documented . However, the absence of association between the rate of isolation and HAART status in this study may be due to the frequent exposure of people living in poor hygienic condition to enteric bacterial infection that possibly diminishes the protective role of HAART in the present study participants. The limited effect of HAART in restoring GIT immunity was also reported .
Globally, increased bacterial resistance to antimicrobial agents is raising a significant concern for public health. The study showed that most bacterial isolates were resistant to tetracycline, SXT and chloramphenicol. Resistance is likely to have developed due to the unrestricted, frequent and inappropriate usage of antimicrobials in the study area. These drugs are commonly used for empirical treatment (SXT and chloramphenicol), as prophylactic before and after surgery (chloramphenicol together with other agents), and patients’ own self-medication (SXT and tetracycline) . The present study showed that most of the isolates were sensitive to nalidixic acid, gentamicin, norfloxacin, ceftriaxone and ciprofloxacin.
Our study faces several limitations. First, as for any hospital-based study, our sample may have lacked representativeness and results may not be generalizable to all HIV-infected population in the study area. Second, the small sample size of the study likely limits its power.
This study showed that enteric bacterial pathogens were common among HIV-infected individuals, particularly in those who experienced diarrhea. Campylobacter and Salmonella species were the predominant isolates. The observed significant association between consumption of raw food and enteric bacteria pathogens may hint at the importance of ingesting adequately cooked food to prevent infection. Most isolates were sensitive to nalidixic acid, gentamicin, norfloxacin, ceftriaxone and ciprofloxacin and a high proportion were resistant to SXT and chloramphenicol. The need to strengthen antimicrobial stewardship efforts should be emphasized to slow grown antimicrobial resistance among this population group.
Acquired immunodeficiency syndrome
Clinical and Laboratory Standards Institutes
Enterohaemorrhagic Escherichia coli
Highly active antiretroviral therapy
Human immunodeficiency virus
Hawassa University Comprehensive Specialized Hospital
Non- typhoidal Salmonella
People living with HIV
Xylose Lysine Deoxychocolate
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We express our deepest gratitude to the staff of Microbiology Laboratory and ART Clinic of HUCSH who supported us with data collection. We particularly thank Mr. Tsegayea Alemayehu, Mr. Enqusilasea Mitiku, Mr. Eshetu Nigusse, Ms. Addis Gebremariam, Mr. Sahelea Demissie and Ms. Zeineba Temam for their unreserved support with the laboratory activities. We thank the study participants who volunteered to take part in this study. Our acknowledgment also goes to the HUCSH for allowing us to access the laboratory facilities and all available resources needed for this research work. We gratefully acknowledge the Hawassa University, Department of Biology for small financial support. Finally, the authors are most grateful to Mr. Adam Craig, who kindly read and edited this manuscript.
No funding was obtained. But, Hawassa University provided minimal finance to support its postgraduate students.
Availability of data and materials
The raw data is available in SPSS file with the principal investigator.
Ethics approval and consent to participate
The study was approved by the Institutional Review Board of College of Medicine and Health Sciences of Hawassa University. Permission was also obtained from the management of the hospital. All study participants gave informed written consent, and any information obtained during the study is kept confidential. Physicians managed individuals found to be infected with pathogenic bacteria.
Consent for publication
The authors declare that they have no competing interests.
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Kebede, A., Aragie, S. & Shimelis, T. The common enteric bacterial pathogens and their antimicrobial susceptibility pattern among HIV-infected individuals attending the antiretroviral therapy clinic of Hawassa university hospital, southern Ethiopia. Antimicrob Resist Infect Control 6, 128 (2017) doi:10.1186/s13756-017-0288-7
- Enteric bacterial infection
- Antimicrobial drug resistance