Use of the slide positivity rate to estimate changes in malaria incidence in a cohort of Ugandan children
© Jensen et al; licensee BioMed Central Ltd. 2009
Received: 17 July 2009
Accepted: 15 September 2009
Published: 15 September 2009
As malaria control efforts intensify, it is critical to monitor trends in disease burden and measure the impact of interventions. A key surveillance indicator is the incidence of malaria. Yet measurement of incidence is challenging. The slide positivity rate (SPR) has been used as a surrogate measure of malaria incidence, but limited data exist on the relationship between SPR and the incidence of malaria.
A cohort of 690 children aged 1-10 years at enrollment were followed for all their health care needs over a four-year period in Kampala, Uganda. All children with fever underwent laboratory testing, allowing us to measure the incidence of malaria and non-malaria fevers. A formula was derived to estimate relative changes in the incidence of malaria (rΔIm) based on changes in the SPR and the assumption that the incidence of non-malaria fevers was consistent over time. Observed and estimated values of rΔIm were compared over two, six, and 12 month time intervals after restricting the analysis to children contributing observation time between the ages of 4-10 years to control for aging of the cohort.
Over the four-year observation period the incidence of malaria declined significantly from 0.93 episodes per person-year in 2005 to 0.39 episodes per person-year in 2008 (p < 0.0001) and the incidence of non-malaria fevers declined significantly from 2.31 episodes per person-year in 2005 to 1.31 episodes per person-year in 2008 (p < 0.0001). Younger age was associated with a significantly greater incidence of malaria and the incidence of malaria was significantly higher during seasonal peaks occurring each January-February and May-June. Changes in SPR produced reasonably accurate estimates of rΔIm over all time intervals. The average absolute difference in observed and estimated values of rΔIm was lower for six-month intervals (0.13) than it was for two-month (0.21) or 12 month intervals (0.21).
Changes in SPR provided a useful estimate of changes in the incidence of malaria in a well defined cohort; however, a gradual decline in the incidence of non-malaria fevers introduced some bias in these estimates.
Malaria remains one of the most important global health challenges, with an estimated three billion people at risk of infection, leading to approximately 250 million cases and one million deaths each year . Efforts to reduce the burden of malaria have intensified recently through the use of effective tools for malaria control, notably long-lasting insecticide-treated nets (LLITN) and artemisinin-based combination therapy (ACT), backed by indoor residual spraying (IRS) of insecticides. These efforts have been made possible by improved policy recommendations and increased support from governments, international organizations, and donors. These expanding resources have come with ambitious targets for control and expectations of significant reductions in disease burden. As an example, in 2005 the World Health Assembly set a target of reducing malaria cases and deaths per capita by 50% between 2000 and 2010, and by 75% between 2005 and 2015 .
As malaria control efforts intensify, it is critical to monitor disease burden and trends, and to measure the impact of interventions . The incidence of malaria, defined as the number of confirmed malaria cases per person-time, is one of the key indicators for monitoring and evaluation . The general working definition of a case of malaria is considered to be "fever with malarial parasitaemia", which normally defines all patients that require anti-malarial treatment . The most accurate method of estimating malaria incidence involves longitudinal studies in defined populations, where all cases of suspected malaria (i.e. those with fever) are captured and undergo a diagnostic test that is highly sensitive and specific. However, such methods require considerable resources and are rarely undertaken as part of routine malaria surveillance programmes. Malaria incidence is typically estimated based on the number of reported cases of malaria captured through a country's health management information system (HMIS). However, there is often a significant lag time before HMIS data become available. In addition, incomplete reporting, lack of a clear denominator, and the absence of laboratory confirmation limit the accuracy of these data , particularly in African countries where the vast majority of reported cases of malaria are not laboratory confirmed . Although statistical adjustments can improve the accuracy of estimates of malaria incidence based on HMIS data, temporal variations in reporting, varied utilization of health care services, and limitations on the accuracy of diagnostic testing can lead to considerable bias and confound attempts to define the relationship between malaria incidence and control interventions.
The slide positivity rate (SPR), defined as the number of laboratory-confirmed malaria cases per 100 suspected cases examined, provides an alternative method for estimating temporal changes in malaria incidence. Compared to clinical definitions of malaria, the SPR gains accuracy in considering only laboratory confirmed cases of malaria, and it can provide a rapid and inexpensive means of assessing the burden of malaria in a population utilizing health care facilities. The SPR has been used in cross-sectional studies to define the level of malaria endemicity [5, 6]. Decreases in the SPR have been cited as evidence for successful malaria control interventions in Africa [7, 8], yet there has been little work describing the quantitative relationship between temporal changes in SPR and changes in malaria incidence using empiric data.
To better characterize the quantitative relationship between SPR and the incidence of malaria we compared changes in these metrics over a 4 year period within a cohort of children in Kampala. This cohort was characterized by a highly incentivized study protocol designed to maximize the capture of all illnesses, uniform diagnostic testing for all episodes of fever, and a highly accurate diagnostic testing system. This study allowed us to directly compare observed changes in the incidence of malaria with changes in incidence of malaria estimated from the SPR.
Study site and recruitment of study participants
Subjects were recruited from the Mulago III parish of Kampala, Uganda, a densely populated urban slum approximately 1 square kilometer in area. Malaria in Kampala is meso-endemic, with two peaks in incidence following the rainy seasons of December-January and April-May . Prior to the start of the study, a census survey was conducted within the parish to provide a sampling frame for study recruitment, as previously described . Between November 2004 and April 2005, 601 children from households randomly selected from our census survey were enrolled in a prospective cohort study if they fulfilled all of the following eligibility criteria: 1) age 1 to 10 years; 2) agreement to come to the study clinic for any febrile episode or illness; 3) agreement to avoid medications administered outside the study; 4) agreement to remain in Kampala during the study period; 5) no known side effects to the study medications; 6) weight > 10 kg; 7) absence of severe malnutrition or known serious chronic disease; 8) absence of life threatening screening laboratory results; and 9) willingness of parent or guardian to provide written informed consent. An additional 89 children were enrolled February - May 2007 using the same eligibility criteria. These children were living in the same households as previously enrolled children but either too young or not yet born at the time of the initial recruitment period.
Follow-up of study participants
Details of the study follow-up have been previously described  and are summarized here. Participants were asked to come to a designated study clinic, open 7 days a week, for all healthcare needs. Subjects who presented to the clinic with fever (tympanic temperature ≥ 38.0°C) or reported history of fever symptoms in the previous 24 hours had blood obtained by fingerprick for a thick blood smear. If the thick blood smear was positive, the participant was diagnosed with and treated for malaria regardless of the parasite density. The first time a subject was diagnosed with uncomplicated malaria, he/she was randomized to receive one of the following anti-malarial combination therapies: amodiaquine + sulphadoxine-pyrimethamine (AQ + SP), amodiaquine + artesunate (AQ + AS), or artemether-lumefantrine (AL). For any subsequent episode of uncomplicated malaria during the remainder of the study, subjects received the same therapy to which they were randomized. Subjects who had recurrence of symptomatic malaria within 14 days were given quinine. Participants with severe malaria or danger signs were also treated with quinine. If, upon any presentation, the thick blood smear was negative, the participant was not given anti-malarial therapy and was managed at the discretion of the study physicians. The diagnosis and management of malaria was based on initial readings of blood smears. Final microscopy results were based on a rigorous quality control system which included re-reading all blood smears by a second microscopist and resolution of any discrepancies by a third microscopist. Of note, no patients diagnosed with uncomplicated malaria based on the initial smear reading were deemed to have a negative smear following the quality control readings.
Data on ITN use was collected at enrollment, although no intervention was made at that time. All participants were given a LLITN between May and June of 2006. In March 2007, the AQ + SP treatment arm was dropped due to poor efficacy. In January 2008 the AQ + AS treatment arm was dropped because the AS component of this regimen was no longer available in Uganda. Study participants were prematurely withdrawn from the study if they met any of the following criteria: 1) movement out of the study area, 2) inability to locate study participants for > 60 consecutive days, 3) withdrawal of informed consent, and 4) inability to comply with the study schedule and procedures. Observation for new episodes of malaria was terminated on December 15th, 2008, and the study was completed on January 31, 2009.
where i represents the baseline time interval and i+1 represents the interval immediately following. The observed and estimated rΔIm were compared across two month, six month, and 12 month time intervals. Relative changes in incidence were always made in reference to consecutive intervals of time such that over the 4 year observation periods there were 23, 7, and 3 estimates of rΔIm across two, six, and 12 month intervals, respectively. Agreement between the observed and estimated values of rΔIm for these intervals was assessed using three methods; directionality (relative increase or decrease in the incidence of malaria), overestimation versus underestimation, and average absolute difference in rΔIm.
Continuous variables were compared using the t-test for two-group comparisons and ANOVA for comparisons of three or more groups. Comparisons of the incidence of malaria and non-malaria fever were made using a negative binomial regression model with exposure reflected by the observation time. A p-value < 0.05 was considered statistically significant.
Description of cohort
Characteristics of cohort stratified by year of observation
Year of observation
Number of children*
Person-years of follow-up
Mean age in years (SD)
Total blood smears performed
Positive blood smears
Malaria treatment given‡
AQ + SP
AQ + AS
Slide positivity rate (SPR)
Incidence of malaria£
Incidence of non-malaria fever£
Incidence of malaria and non-malaria fever
Smear positivity rate and incidence of malaria and non-malaria fever over time
Incidence of malaria†
Incidence of non-malaria fevers†
Associations between age and seasonality the incidence of malaria and non-malaria fever.
Incidence of malaria
IRR* (95% CI)
Mar-Apr + Jul-Dec
Jan-Feb + May-Jun
Rest of the year
Comparison of observed and estimated changes in the incidence of malaria
As efforts to reduce the burden of malaria increase, there is a vital need to accurately measure the impact of control interventions. The vast majority of malaria control interventions are not implemented as controlled experiments, therefore it is important to develop standardized metrics and methods for estimating their impact through routine surveillance. One of the most important metrics for malaria monitoring and evaluation is the incidence of disease (i.e. the number of cases of malaria per person-time). However, direct measures of malaria incidence are expensive and logistically challenging in the context of routine surveillance programmes, especially within Africa. The SPR has been used as a practical and relatively inexpensive alternative for tracking the burden of malaria over time. Indeed, the use of the SPR is advocated by the World Health Organization  and SPR measures have been used as evidence of both temporal increases  and decreases in the burden of malaria . For example, routine surveillance data from four sites in The Gambia documented a decline in the SPR from 11-37% in 2003 to 2-18% in 2007. This substantial reduction in SPR was temporally linked to a more than three-fold increase in ITN coverage and a change in anti-malarial treatment policy . Nevertheless, SPR remains a surrogate measure of the burden of malaria and a better understanding of its relationship to malaria incidence is needed.
Based on the assumptions that there is no differential bias in the subgroup of patients with suspected malaria who undergo laboratory testing within a target population, and that the incidence of non-malaria fevers does not change over time, we show that there is a direct mathematical relationship between the relative change in the incidence of malaria (rΔIm) and the relative change in the SPR. The rΔIm represents the ratio of incidence measures over 2 consecutive time periods, where a value of 2 represents a 2-fold increase and a value of 0.5 represents a 2-fold decrease in the incidence of malaria. It is important to note that the relationship between SPR and the incidence of malaria is neither linear nor proportional. For example, a 5% absolute decline in SPR from 50% to 45% corresponds to an 18% reduction in the incidence of malaria (rΔIm = 0.82) while the same 5% absolute decline in SPR from 10% to 5% corresponds to a 53% reduction in the incidence of malaria (rΔIm = 0.47). Similarly, a 50% relative decline in SPR from 50% to 25% corresponds to 67% reduction in the incidence of malaria (rΔIm = 0.33) while the same 50% relative decline in SPR from 10% to 5% corresponds to a 53% reduction in the incidence of malaria (rΔIm = 0.47). Understanding the mathematical relationship between changes in SPR and changes in malaria incidence has important implications for evaluating the impact of interventions using temporal changes in SPR.
Date from the cohort used in this study offered a valuable opportunity to test the relationship between changes in SPR and changes in the incidence of malaria within a population of African children. Using the assumptions described above, estimated values of rΔIm were calculated for two, six, and 12 month intervals and compared them to the corresponding observed values. While the SPR produced reasonable estimates of rΔIm over all three intervals, there was some bias in the estimated values due to the fact that the incidence of non-malaria fevers varied over time. Indeed, the incidence of non-malaria fevers showed marked seasonality as well as general decline over the course of the study. These two variations had differing effects, with seasonal changes in the incidence of non-malaria fevers primarily affecting estimated changes in the incidence of malaria over short time intervals (two months), and an overall decline affecting longer time intervals (12 months). The six month interval produced the best predictions because it grouped the incidence of non-malaria fevers into relatively equal seasons while remaining short enough to minimize the effect of the general decline in the incidence of non-malaria fevers over time. Overall, these results show the significant and varied effects that changing non-malaria fever rates can have on the accuracy of SPR in predicting changes in the incidence of malaria.
These results also demonstrate a consistent seasonal variation in the incidence of malaria and a decline in the incidence of malaria as age increases, both of which are well documented in other areas of Africa . Substantial changes in the incidence of malaria may be due to these or other factors rather than the direct effect of malaria control interventions. As efforts to reduce the burden of malaria intensify, it is prudent to consider secular trends in malaria incidence when interpreting the effects of malaria control interventions on any surveillance data, including SPR.
The SPR has several advantages as a surrogate measure for changes in the incidence of malaria using routine surveillance data. Surveillance using SPR applies a consistent and accepted case definition of malaria, is easy to integrate into most health management information systems, and can be done at a fraction of the cost of measuring the true incidence of malaria. SPR can be a useful measure of the impact of control interventions with several important considerations. First, accurate measurement of SPR requires the availability and utilization of quality laboratory diagnostic testing. Second, a change in SPR does not correspond to a proportional or linear change in the incidence of malaria. Third, when fever is used as the criterion for laboratory testing, a change in the incidence of non-malaria fevers can result in a change in SPR that does not reflect the true change in the incidence of malaria. Forth, additional factors such as age and seasonality can affect the incidence of malaria and may exaggerate or conceal the impact of interventions. Lastly, while SPR can be used to estimate relative changes in the incidence of malaria over time, it cannot estimate the actual incidence of malaria in a target population. Additional studies are needed to better understand the use of SPR in the context of surveillance programmes. In this study, presumable all febrile episodes were captured, laboratory testing was performed on all patients who presented with a fever, and laboratory testing for malaria was highly accurate. In contrast, most malaria surveillance systems only obtain a subset of fevers in a target population and are often limited by incomplete and inaccurate laboratory testing. The effect of these factors on the ability of the SPR to accurately estimate changes in the incidence of malaria may have important implications for the interpretation of surveillance using SPR in real world settings.
We would like to thank the patients and their families for participation in the study. We would also like to thank the study physicians and other health staff who participated in the patient care and data collection.
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