Prevalence and antimicrobial resistance of coagulase negative staphylococci clinical isolates from Ethiopia: a meta-analysis

Background Antimicrobial resistant Coagulase-negative Staphylococci (CoNS) have limited treatment options, rendered diseases untreatable and made hospitals to be reservoirs of the resistant strains. The aim of this study was to estimate the pooled prevalence and antimicrobial resistance of clinical isolates of CoNS from Ethiopia. Results The electronic database search yielded 6511 articles of which 21 met predefined inclusion criteria. The pooled prevalence of CoNS from Ethiopia was 12% (95% confidence interval (CI): 8, 16%). The analyses revealed high level of CoNS resistance to methicilin (37%[95% CI: 21, 55%]), vancomycin (911%[95% CI: 0, 35%]), penicillin (58%[95% CI: 42, 74%]), amoxicillin (42%[95% CI: 23, 61%]), amoxicillin-clavulanate (27%[95% CI: 2, 27%]), ampicillin (64%[95% CI: 46, 80%]), tetracycline (60% [95% CI: 49, 70%]), doxycycline (36%[95% CI:19,55%]), Sulfamethoxazole-trimethoprim (50%[95% CI: 36, 64%]), ceftriaxone (27% [95% CI: 18, 38%]), cephalothin (32% [95% CI: 7, 62%]), norfloxacin (39%[95% CI: 24, 56%]), chloramphenicol (40%[95% CI: 23, 58%]), clindamycin (11% [95% CI: 2, 27%]), ciprofloxacin (14%[95% CI: 6, 22%]), gentamicin (27%[95% CI:19,36%]) and erythromycin (30%[95% CI:20%,42%]). High heterogeneity, I2 ranging from 69.04 to 96.88%; p-values ≤0.01, was observed. Eggers’ test did not detect publication bias for the meta-analyses and low risk of bias was observed in included studies. Conclusions CoNS has gotten resistant to commonly used antimicrobials from Ethiopia. There is a need of launching national antimicrobial treatment, development and implementation of policy guidelines to contain the threat. Further research focusing on factors promoting resistance and the effect of resistance on treatment outcome studies are warranted. Electronic supplementary material The online version of this article (10.1186/s12866-018-1188-6) contains supplementary material, which is available to authorized users.


Background
The Coagulase-negative Staphylococci (CoNS) are normal flora which often cause infection associated with implanted appliances and devices, especially in the old, very young children and immune-compromised patients [1,2]. On human body, there is a widespread distribution of CoNS from normal flora to those that cause severe diseases [3,4]. Acquisition of genes result in the conversion of commensal staphylococci into invasive pathogens [5]. The vast majority of infections caused by CoNS results in hospitalization [6] and they are among the five most commonly reported pathogens in nosocomial infections [7]. Many of the CoNS species are commonly resistant to antimicrobials used currently against staphylococcal infections [8,9]. The spread of multi-drug resistant CoNS strains has been promoted by the use of antibiotics in hospitals which has provided a reservoir of antimicrobial resistant strains. The genetic exchange between CoNS and Staphylococcus aureus (S. aureus) and the widespread prevalence of methicillin resistance among CoNS species is a great public health concern [5,9,10].
The rising trend of antimicrobial resistant staphylococci species including CoNS [11][12][13][14][15] worldwide requires national antimicrobial resistance prevention policy and updated treatment guidelines which are based on national antimicrobial resistance surveillance. However, developing countries like Ethiopia have financial constraints to conduct national antimicrobial resistance survey. Small scale studies funded by various organizations are conducted and these studies could provide ample evidence to fulfill the gap in national antimicrobial surveillance data if they are summarized and synthesized to draw national estimate of national antimicrobial resistance prevalence. To this end, we had previously conducted a meta-analysis of resistance of S. aureus to antimicrobial agents in Ethiopia [16]. The finding of the study revealed a very high level of S. aureus resistance to almost to all of antimicrobial agents commonly used in Ethiopia. Similarly, CoNS are important opportunistic pathogens showing a growing threat of antimicrobial resistance and becoming a difficult-totreat pathogens. There is a need to have summarized evidence on AMR burden among CoNS to draw national estimate of CoNS antimicrobial resistance prevalence. The current study focuses on CoNS species while the previous study entirely focuses on S. aureus [16]. The two studies are separate and there is no overlapping data. However the two studies followed similar study design and objectives.
To the best of our knowledge, there is neither nationwide prevalence surveillance and resistance data nor meta-analysis or systematic review on prevalence of antimicrobial resistance of CoNS in Ethiopia. However, many small scale studies are conducted in many parts of the country. The studies had clear differences in setting, population, methodology, findings, and other characteristics. The purpose of this study was, therefore, to determine prevalence and antimicrobial resistance of CoNS using the best available literature from Ethiopia.

Study design
Meta-analysis of prevalence and antimicrobial resistance of CoNS was conducted using the best available evidence from Ethiopia.

Literature search strategy
To identify potentially eligible studies, databases of Pub Med, Google Scholar, Hinari, Scopus and directory of open Access Journals (DOAJ) were searched until December 2016. Two of the authors (SS and SF) independently searched for relevant studies to be included. Selection of the study was done by the two authors independently. Consensus was reached on discussion with the third author (SD) whenever disagreement arose. Endnote software was used to manage the references. Articles indexed in Pub Med were directly downloaded using Endnote while those not found in Pub Med are manually added to Endnote. The reference lists of the identified studies were manually searched to identify additional relevant studies for inclusion.

Study selection procedures and criteria
Two-stage selection of the articles was conducted independently by two of the authors (SS and SF). In the first stage, the titles and abstracts of all retrieved articles were reviewed and grouped as eligible when they address the study question, otherwise dropped from further review. In the second stage, eligible articles were reviewed in full detail for decision on inclusion.

Eligibility criteria
Articles were selected based on predefined inclusion criteria. Included articles in this study were those that had the following characteristics: Prospective or retrospective studies, original journal articles, with antimicrobial susceptibility test data according to the criteria of the Clinical Laboratory Standards Institute (CLSI) [17], studies which defined antimicrobial resistance range according to CLSI manual, and those that used only clinical isolates. Duplicate studies, studies with small number of isolates (1)(2)(3)(4)(5)(6)(7)(8)(9), studies conducted other than clinical subjects like on foods, food handlers' belongings, health workers' belongings, health workers' carriage or animals and of non-infectious carriage were excluded.

Data extraction
Excel spreadsheets prepared by SD were used for data extraction. The characteristics of studies extracted included first author name, year of publication, place of study, study design, total number of CoNS, number of resistant CoNS isolates, and isolation source. The primary outcome of this study was prevalence and antimicrobial resistant CoNS. If the proportion of sensitive isolates (x) was reported, the number of resistant isolates was calculated by multiplying the number of total isolates (y) by one minus the proportion of sensitive isolates (1-x). The proportion of CoNS is obtained from the division of CoNS positive population by total population under the study.

Risk of bias assessment
The methodological quality of each included study was assessed using the quality assessment checklist for prevalence studies as used in the study [18]. Graphs of the summary of the risk of bias were developed using RevMan 5.3 (Cochrane Informatics and Knowledge Management Department, London, UK).

Statistical analysis
Statistical analyses were conducted using Stata version 13.0 (Statacorp, LP, college station, TX). The prevalence values were pooled using the metaprop command in Stata [19]. Heterogeneity of the studies was assessed using the I 2 statistic. Because of significant heterogeneity amongst the studies, the random-effects model (REM) was used to estimate the pooled proportion and 95% CIs using the DerSimonian and Laird method [20]. The Freeman-Turkey double arcsine transformation was used to avoid the missing of proportions near or at 0 and 1 from meta-analysis [21]. Subgroup analysis was done by study design, isolation source and study area. The presence of publication bias was tested using Egger's test [22]. This meta-analysis was conducted as per the Preferred Reporting Items for Systematic Reviews and Meta-Analysis (PRISMA) guidelines [23].

Publication bias, heterogeneity and risk of bias assessment
High heterogeneity, I 2 ranging from 67.65 to 96.76%; p-values ≤0.01 was observed. Eggers' test didn't detect publication bias. Overall, most of the prospective studies demonstrated a low risk of bias; however that of retrospective relatively a higher risk of bias. The methodological quality of the studies included is illustrated in (Fig. 2).
Comparisons of the prevalence of CoNS resistance to different antimicrobial agents were outlined in (Fig. 6). The magnitude of CoNS resistance to the different antimicrobials ranges from 11% to vancomycin and clindamycin to 64% to ampicillin.

Discussion
In this meta-analysis, we estimated the pooled prevalence and antimicrobial resistance of CoNS to 17 different antimicrobials commonly used in Ethiopia. Twenty-one studies were included in this meta-analysis and the number of studies included in each meta-analysis varies from 5 to 17. Overall, the 21 studies provided evidence concerning the prevalence and antimicrobial resistance of CoNS to different antimicrobials based on isolates identified from 8047 patients. The study revealed that CoNS resistances to commonly available antimicrobials were high, ranging from 11% (vancomycin) to 64% (clindamycin and amipicilin) in Ethiopia. The emergence of antimicrobial resistant staphylococcus species is a global concern. Our previous studies showed that MRSA is unexpectedly high (97.0%) in Hawassa University comprehensive specialized hospital, Ethiopia [12] and meta-analysis on MRSA in Ethiopia demonstrated very high level of resistance (47% [95% CI: 33, 61%]) [16] and in other meta-analysis similar results were observed (32.5% [95% CI, 24.1 to 40.9%]) [60]. The current findings on MRCoNS showed similarly high resistance (34 95% CI [17, 53%]). These findings signified that methicillin resistance is increasing and becoming of public health concern in Ethiopia. The prevalence of MRCoNS was relatively lower than MRSA. This may be due to infrequent occurrence of infection with CoNS compared to S. aureus resulting in decreased antimicrobial exposure. However, CoNS is continuously evolving from commensal staphylococci into invasive pathogens and then to resistant strains and possibly gaining resistant genes from S. aureus [5].
There is no published meta-analysis focusing on antimicrobial resistance of CoNS for comparison, however the pooled prevalence of CoNS resistance in this study showed a higher level of resistance compared to other studies in different parts of the world [8,61]. A higher prevalence of resistance was observed in a study conducted in India compared to the current study [62,63]. A higher rate of resistance in this study may be due to a higher exposure, irrational use of antimicrobial agents and lack of infection prevention policies, especially in hospital settings.
Subgroup analysis by study design showed a higher pooled prevalence of CoNS in prospective studies (17%) compared to retrospective studies (6%). This could be attributed to missing data and poorly defined denominator in the case of retrospective design. A higher prevalence of CoNS in SSI may be due to the fact that CoNS are opportunistic pathogens causing infections in patients with implanted medical devices and surgical procedures [8,64]. A higher prevalence of CoNS in Addis Ababa compared to other regions can be explained by lager exposure rate in Tikur Anbessa referral hospital where referral cases with severe Aminoglycosides and fluoroquinolones showed relatively lower level of resistance in this study. A lower level of resistance observed could suggest the development of mutant resistant strains for commonly used first line agents made the microbes easily susceptible to less commonly used antimicrobials [65,66]. The lower rate of resistance observed with clindamycin may be due to its infrequent use in Ethiopia resulting in lower exposure rate.
The cause of antimicrobial resistance is multifactorial, from lack of infection prevention to irrational use of antimicrobials by health professionals and patients [67]. It is a common practice that antimicrobials can be obtained over-the-counter in Ethiopia. This mishandling of antimicrobials is the main cause of emergence of resistance [68]. Absence of culture techniques and routine antimicrobial susceptibility testing and consequent empiric therapy is a reason for selection of resistant strains and spread. Therefore, in line to strategies for prevention and containment of resistance there is a need for innovative ways of halting resistance. Combination therapy and search for novel antimicrobials will provide a vital role to counter this global problem.
Significant risk of bias was observed with five retrospective studies. This risk of bias was due to unclear denominator in retrospective study during data retrieval and possibly loss of samples during retrieval resulting in non-response. In addition, all of the included studies were conducted in small particular localities and non-representative convenient samplings technique was used. Therefore, the limitations of this study arise from the characteristics of included studies. First, this is in vitro antimicrobial resistance testing and direct inference to clinical outcome calls for caution. Secondly, many studies were conducted in limited localities and mainly in teaching hospitals in bigger cities where patients with advanced and severe stages of diseases with recurrent infection are treated. For this reason, the resistance prevalence could have been overrated. Lastly, studies were not