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Baseline Burden of Rotavirus Disease in Sudan to Monitor the Impact of Vaccination

Mustafa, Amani MB BS*; Makki, Alia BDS, MSc*; Siddig, Omer BDS, MSc*; Haithami, Salah MD, MSc*; Teleb, Nadia MD, MPH, DrPH; Trivedi, Tarak MD; Parashar, Umesh MB BS; Patel, Manish MD

The Pediatric Infectious Disease Journal: January 2014 - Volume 33 - Issue - p S23–S27
doi: 10.1097/INF.0000000000000095

Background: In 2011, Sudan became the first low-income country in Africa to introduce a rotavirus vaccine. Prevaccine baseline data on rotavirus disease burden are crucial for monitoring the impact of this new vaccine program.

Methods: We conducted active, hospital-based surveillance for rotavirus disease at 8 regional public hospitals in Sudan using a standard protocol recommended by the World Health Organization for 2 full years immediately preceding vaccine introduction. Cases were children <5 years hospitalized with gastroenteritis, defined as acute onset of 3 or more loose stools or 2 or more episodes of vomiting in a 24-hour period. Stool specimens from cases were tested for rotavirus using a commercially available assay.

Results: From June 2009 to May 2011, rotavirus was detected in 3985 (36%) of 10,953 children hospitalized for gastroenteritis, with detection rates ranging from 25% to 48% at the 8 hospitals. Approximately 61% of the rotavirus hospitalizations occurred before 1 year of age and most (91%) occurred before 2 years of age. Rotavirus was detected year-round in Sudan with peaks during March to May and November to December. Applying rotavirus prevalence to national estimates of diarrhea events, we calculated 9800 deaths, 22,800 hospitalizations and 55,400 outpatient visits related to rotavirus per year among children <5 years of age in Sudan.

Conclusions: The high burden of rotavirus disease in Sudan indicates that the recently implemented vaccination program should substantially improve child health in Sudan. This nationwide rotavirus surveillance system will be an important platform for assessing the benefits and value of rotavirus vaccine in a developing country setting.

From the *Ministry of Health, Khartoum, Sudan; World Health Organization, Regional Office for the Eastern Mediterranean, Cairo, Egypt; and Centers for Diseases Control and Prevention, Atlanta, GA.

Accepted for publication August 7, 2013.

The authors have no conflicts of interest to disclose.

Address for correspondence: Manish Patel, MD, Centers for Disease Control and Prevention, 1600 Clifton Rd, MS A-34, Atlanta, GA 30333. E-mail:

Rotavirus is the most common cause of childhood morbidity worldwide, accounting for 453,000 deaths children <5 years of age.1 Approximately half of these deaths occur in Africa. In 2009, the World Health Organization (WHO) recommended 2 new rotavirus vaccines (Rotarix; GSK Biologicals, Rixensart, Belgium and RotaTeq; Merck & Co, West Point, PA) for use in all children worldwide.2 These vaccines have been tested in various regions of the world and demonstrated heterogeneity in efficacy that correlates with the socioeconomic condition of the population, ranging from 76% to 98% in high- and middle-income countries to ~39–48% in low-income settings.3–7 However, even with the lower efficacy in the poorer settings, benefits of vaccine were substantial in these settings in terms of absolute reduction in severe rotavirus disease because of the very high baseline burden.6

Rotavirus vaccines have been widely adopted in many middle- and high-income countries.8 In these countries, in addition to reductions in rotavirus disease in vaccinated children,9,10 alterations in the timing and seasonal pattern of the annual rotavirus epidemic11 and indirect benefits to unvaccinated members of the community12,13 are some of the notable findings that have been documented after the introduction of vaccine. While changes in strain patterns have also been seen in some countries after vaccine introduction,14–16 similar secular changes have also been seen in countries without vaccination in Expanded Programme on Immunization and thus these changes might represent natural variation in rotavirus strain prevalence. Having established baseline surveillance for rotavirus disease and strains before the introduction of vaccine was crucial for the successful monitoring of vaccine impact in these early adopter countries and gaining a better understanding of the epidemiology of rotavirus.8

In 2011, Sudan became the first low-income country in Africa to introduce a rotavirus vaccine in its national immunization program. The decision to introduce rotavirus vaccine in Sudan was based in part on the high burden of rotavirus disease in the country, which was demonstrated through the establishment of surveillance for rotavirus diarrhea at sentinel hospitals nationwide and is described in this article. Against this baseline pattern, the impact of rotavirus vaccine can be robustly measured and changes in disease ecology after the introduction of vaccine soundly interpreted.

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Active Rotavirus Surveillance

Sudan is a low-income country in eastern North Africa, with an annual birth cohort of 1.4 million children. In 2007, the Ministry of Health of Sudan joined a regional rotavirus surveillance network for the Eastern Mediterranean Region of the WHO. After pilot surveillance, a stable system consisting of 8 pediatric hospitals in Sudan has been sustained since June 1, 2009. All hospitals in the network followed a standard WHO surveillance protocol for enrolling all children <5 years of age who are hospitalized for acute gastroenteritis, which is defined as acute onset of 3 or more loose stools or 2 or more episodes of vomiting in a 24-hour period, which were not explained by another diagnosis.17 Acute onset was defined as symptom(s) onset of <14 days before presentation.

Regional epidemiologists were assigned as focal points for the surveillance program and were responsible for training hospital staff, collating surveillance data, providing feedback to hospital staff and monitoring surveillance indicators. Physicians at each hospital were routinely reminded to enroll all children meeting the surveillance case definition. Surveillance coordinators at each hospital ensured enrollment of all potential participants by reviewing daily admission logs and by frequent discussions with physicians. Surveillance coordinators collected demographic and clinical information on a case report form and obtained a stool sample (>5 mL) as soon as feasible during the hospitalization. The stool samples were refrigerated immediately and shipped weekly to a national laboratory for rotavirus testing using a commercially available enzyme-linked immunosorbent assay (IDEIA, Rotavirus Test, Dako Diagnostic). At the national laboratory, rotavirus-positive samples were stored at −70°C for genotyping at a future date.

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Estimates of National Rotavirus Disease Burden

We applied the method used by the WHO to estimate nationwide burden of mortality of deaths, hospitalizations and outpatient visits related to rotavirus in Sudan.18,19 To calculate the number of rotavirus deaths occurring annually in Sudan among children <5 years of age, we multiplied the prevalence of rotavirus hospitalizations among children <5 years of age with gastroenteritis (36%) from the current surveillance by the number of diarrhea deaths in that age group as estimated by the WHO.20 For hospitalizations, we multiplied the prevalence of rotavirus hospitalizations by the number of annual hospitalizations related to diarrhea and dehydration among children <5 of age in Sudan during 2010, as recorded by the Ministry of Health in the Annual Health Statistical report. Prevalence of rotavirus is lower for milder disease compared with severe disease (ie, hospitalizations). Thus, for outpatient rotavirus events, we multiplied the number of outpatient events related to diarrhea from this report by the estimated proportion of rotavirus prevalence among milder cases of diarrhea in low-income countries (19%).18 Subsequently, we calculated the cumulative risk that a child would experience these events (death, hospitalization or outpatient visit) before reaching the age of 5. Here, we assumed that the number of these events in each year among a group of children <5 years of age would approximate the number of events occurring in a single birth cohort that was followed to age 5. Cumulative risks were expressed as the ratio of 1 to the quotient of the annual birth cohort (n = ~1,400,000) and the number of respective events among children <5 years of age.

All data were collected and stored in an Access (Microsoft, Redmond, WA) database and analyzed using Excel (Microsoft, Redmond, WA) and SAS 9.1 (Cary, NC). To assess seasonal trends, we plotted the number of monthly visits for all-cause and rotavirus-associated diarrhea among children <5 years of age during the 2-year surveillance period. The severity of acute gastroenteritis was categorized based on the 20 point Vesikari scale and differences compared between children testing positive versus negative for rotavirus. Proportions were compared using the χ2 test for unequal odds, mean values were compared using the unpaired 2-sided t-test and median values were compared using the Wilcoxon rank-sum test.

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Active Rotavirus Surveillance

From June 2009 to May 2011, we enrolled a total of 10,910 children with acute gastroenteritis in the rotavirus surveillance system at the 8 hospitals in Sudan. Of these children, 3957 (36%) tested positive for rotavirus, with prevalence being equal during both surveillance years (Table 1). Prevalence of rotavirus detection ranged from 25% to 48% between the 8 sites.



Nearly all of the rotavirus hospitalizations (91%) were among children <2 years of age, with 61% of the events occurring during the first year of life (Fig. 1). Only 1% (26/3985) of the rotavirus hospitalizations occurred among children <2 months of age and another 8% (300/3985) occurred between 2 and 4 months of life, before the age when rotavirus vaccination is completed.



Rotavirus hospitalizations occurred year-round with detection rates being >10% during all months of the year. Two peaks in rotavirus prevalence were observed in Sudan during March to May and November to December (Fig. 2). No difference in seasonal pattern was observed between the 8 surveillance sites.



Of all children hospitalized with gastroenteritis, 59% and 60% of the rotavirus-positive and rotavirus-negative cases were male, respectively. Fever was reported among 80% of the children and over half had 2–3 or more episodes of vomiting and diarrhea per day (Table 2). Among children with rotavirus gastroenteritis, moderate to severe dehydration was reported in ~98% of the children, with 96% of them scoring >11 on the Vesikari severity scoring scale; 88% required intravenous hydration. Duration of illness was >3 days in 32% of the children, with hospitalization lasting for a median duration of 1 day. More children with rotavirus-negative gastroenteritis (38%) had illness lasting longer than 3 days compared with those with rotavirus-positive gastroenteritis (32%; P < 0.001). Similarly, the proportion of children with Vesikari score ≥15 was higher among those with rotavirus-negative gastroenteritis (34%) versus those with rotavirus-positive gastroenteritis (27%; P < 0.001).



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National Estimates of Rotavirus Deaths, Hospitalizations and Outpatient Visits in Sudan

We applied the prevalence of rotavirus among children hospitalized for diarrhea (36%) to the national estimates of diarrhea deaths (n = 25,606) and diarrhea and dehydration hospitalizations (n = 63,220) to estimate that 9200 deaths and 22,800 hospitalizations related to rotavirus occur each year among children <5 years of age in Sudan. Applying the 19% prevalence of rotavirus among children with outpatient diarrhea in developing countries, we estimate that 55,400 of the 291,318 annual visits for diarrhea in Sudan are related to rotavirus. Thus, we estimate that before the introduction of rotavirus vaccine, 1 in 152 Sudanese children died, 1 in 61 was hospitalized and 1 in 25 received outpatient care for rotavirus infection before reaching 5 years of age.

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The establishment of a rotavirus surveillance network in Sudan led to the confirmation of rotavirus infection as a common cause of severe childhood diarrhea and allowed the National Immunization Technical Advisory Group to make an evidence-based recommendation to Ministry officials for introducing rotavirus vaccine. Before the implementation of a rotavirus vaccine program, rotavirus infections in Sudan represented some 36% of the severe diarrhea cases among children <5 years of age. Applying these surveillance data to the number of diarrhea deaths and hospitalizations in Sudan, we estimate that the risk of death for a child <5 years of age in Sudan was 1 in 151 and the risk of hospitalization was 1 in 61, amounting to nearly 9200 childhood deaths and 22,800 childhood hospitalizations per year. This first description of the burden of rotavirus disease in Sudan strongly supports the country’s decision to introduce the vaccine for control of rotavirus disease and lays the framework for future monitoring of vaccine impact.

Rotavirus seasonality in Sudan is similar to other low-income countries,21 in that symptomatic infections are prevalent year-round, with some increase during November to December and March to May. Most of the surveillance sites in Sudan are in a desert climate, where temperatures are lower during November to March compared with April to September, and periods of heavy rainstorms and higher relative humidity may occur from July to September. The increase in prevalence of rotavirus during the drier, cooler months with lower relative humidity is consistent with some previous observations from other settings providing some support to the hypotheses that these climate conditions might favor the increase in aerial transport of dried, contaminated fecal material22–26; however, this observation has not been consistently noted in all locations, thus raising skepticism of a single unifying explanation for the seasonality of rotavirus disease.

Any observed changes in seasonal pattern of rotavirus disease after the introduction of rotavirus vaccine after the recent rollout of vaccine in Sudan might provide further insight on this perplexing issue. Modelers have suspected that birth rates might influence the seasonal patterns of rotavirus disease, in that countries with lower birth rates have more seasonal disease and those with higher birth rates have year-round disease, in part because of the more rapid accumulation of susceptible infants through birth in the latter setting sustain year-round transmission.27 In settings with higher birth rates, vaccination, by virtue of reducing the effective rate of accumulation of susceptible infants through, could lead to the appearance of strongly seasonal disease during the first few years of vaccination if higher birth rates were indeed the primary driver of sustained year-round transmission in prevaccine years.

Sudan is the first low-income country in Africa to introduce a rotavirus vaccine. The heterogeneity in the efficacy of rotavirus vaccines in the poorer settings and the programmatic and logistical challenges that could emerge under unpredictable real-world conditions (eg, cold-chain problems, delays in timeliness vaccination) necessitate close monitoring of rotavirus disease after the introduction of vaccine.28 Sudan’s well-established and robust rotavirus surveillance system bodes well for evaluation of the performance and impact of rotavirus vaccine in this low-income setting. Through this surveillance, a reduction in the absolute burden of rotavirus disease would first be noticed among infants during the first year or 2 after attaining high coverage and then in older children during subsequent years.28,29 However, given that vaccine efficacy is expected to be ~50% in Sudan on the basis of clinical trial efficacy in similar setting, even with high coverage of 80–90% and the prevaccine rotavirus prevalence of 36%, a substantial amount of cases would still be detected at these surveillance sites. To allay concerns of vaccine failure as a cause for ongoing detection of rotavirus cases, it may be prudent to leverage these surveillance sites and apply robust epidemiologic methods such as the case-control approach to directly assess vaccine effectiveness against rotavirus hospitalizations.28,29 The establishment of a functional rotavirus surveillance network in Sudan was the necessary first step to conduct such postlicensure assessments that would ultimately ensure optimal effectiveness in target populations with high mortality.

Some limitations of this surveillance should be considered. First, rotavirus disease is known to have secular variation—prevalence of rotavirus disease changes over time depending on clinical management and healthcare seeking patterns as well as prevalence of other enteric pathogens causing diarrhea. Although the consistency of the burden estimates with other similar settings is reassuring, our burden estimates only reflect 2 years of surveillance. Second, the estimates of diarrhea deaths are not based on direct rotavirus testing which is impractical for establishing etiology in diarrhea deaths, but is based on the assumption that the proportion of severe, dehydrating diarrhea is similar to the proportion of children dying from diarrhea. Lastly, data on children enrolled through the sentinel surveillance system may not be generalizable to the entire Sudanese population, although the fact that we had 8 sentinel sites scattered throughout the country is reassuring.

In summary, the high burden of rotavirus disease in Sudan indicates that recent introduction of rotavirus vaccine in Sudan should prevent a substantial proportion of diarrhea fatalities and hospitalizations in the country. Continued surveillance of rotavirus diarrhea using the same systematic surveillance methodology that was applied before the introduction of vaccine will allow for assessment of the benefits of vaccination within a few years of vaccination and identify potential areas of concern that warrant future attention. Ultimately, these data would allow policy makers to assess the value of vaccination for controlling severe and fatal rotavirus disease.

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rotavirus; vaccines; diarrhea; burden

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