bioRxiv ScienceSearch

bioRxiv · 10.1101/572198

The evolution and phylodynamics of serotype A and SAT2 foot-and-mouth disease viruses in endemic regions of Africa

Abstract

Foot-and-mouth disease (FMD) is a major livestock disease with direct clinical impacts as well as indirect trade implications. Control through vaccination and stamping-out has successfully reduced or eradicated the disease from Europe and large parts of South America. However, sub-Saharan Africa remains endemically affected with 5/7 serotypes currently known to be circulating across the continent. This has significant implications both locally for livestock production and poverty reduction but also globally as it represents a major reservoir of viruses, which could spark new epidemics in disease free countries or vaccination zones. This paper describes the phylodynamics of serotypes A and SAT2 in Africa including recent isolates from Cameroon in Central Africa. We estimated the most recent common ancestor for serotype A was an East African virus from the 1930s compared to SAT2 which has a much older common ancestor from the early 1700s. Detailed analysis of the different clades shows clearly that different clades are evolving and diffusing across the landscape at different rates with both serotypes having a particularly recent clade that is evolving and spreading more rapidly than other clades within their serotype. However, the lack of detailed sequence data available for Africa seriously limits our understanding of FMD epidemiology across the continent. A comprehensive view of the evolutionary history and dynamics of FMD viruses is essential to understand many basic epidemiological aspects of FMD in Africa such as the scale of persistence and the role of wildlife and thus the opportunities and scale at which vaccination and other controls could be applied. Finally we ask endemic countries to join the OIE/FAO supported regional networks and take advantage of new cheap technologies being rolled out to collect isolates and submit them to the World Reference Laboratory.

Source connections

Explore related subjects

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Lycett, S. J., Tanya, V. N., Hall, M., King, D., Mazeri, S., Mioulet, V., Knowles, N., Wadsworth, J., Bachanek-Bankowska, K., Ngwa Victor, N., Morgan, K. L., Bronsvoort, M.. 2019-03-08. The evolution and phylodynamics of serotype A and SAT2 foot-and-mouth disease viruses in endemic regions of Africa. https://doi.org/10.1101/572198

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related preprints

Determinants of Severe Acute Malnutrition among Children age 6-59 Months Old in Two Public Hospitals, North West Ethiopia: a Case Control Study

IntroductionGlobally sever acute malnutrition affects 16.4 million under five children and more than one quarter of those children live in Africa. In Ethiopia, about 3% of children are severely wasted and continues to be persistent over the past 15 years. To implement an effective intervention, it is essential to identify predictors predispose to it. This study therefore, aimed to identify determinants of severe acute malnutrition among under five children in selected public health facilities, Northwest Ethiopia.\n\nMethodsInstitution based; age matched case control study was conducted on 104 cases and 208 controls. Bivariate and multivariate analyses were done using conditional logistic regression to identify predictors. Variables having P-value [&le;] 0.2 during binary analysis were entered into multivariate analysis. P value < 0.05 was considered as statistically significant.\n\nResultsChildren from households of large family size(AOR=2.7, 95% CI: 1.06 - 6.9), having monthly income less than 1500 birr (AOR = 5.17, 95% CI: 1.7-15.3), which are food insecure (AOR = 2.9, 95% CI:1.17-7.28)), which didnt receive any nutrition information (AOR= 3.47,95% CI: 1.14 - 7.10), didnt practice exclusive breastfeeding (AOR = 2.69, 95% CI: 1.18 - 6.10), and practice infrequent hand washing (AOR= 7.6 95% CI:2.44-23.6) as well as children who had history of diarrhea two weeks prior to the survey (AOR 3.2, 95%CI:1.4-7.2) were more likely to suffer from severe acute malnutrition.\n\nConclusionFamily size, monthly income, food security status, exclusive breastfeeding practice, access to information on child feeding, hand washing practice and history of diarrhea were identified to be predictors of severe acute malnutrition. Due emphasis should be given to promoting family planning, improve household livelihoods and food security, strength awareness creation on exclusive breastfeeding and frequent hand washing practices as well as prevention of diarrhea.

epidemiology

Associations between meteorological variables, vector indices and dengue hospitalizations in Can Tho, Vietnam: a field survey

IntroductionDengue is a significant cause of morbidity and mortality in Can Tho, a province in the Mekong Delta in Vietnam. In this region, average temperatures have increased by 0.5{degrees}C since 1980, and river levels have risen. In a time-series analysis, we previously found that relative humidity was the most important meteorological predictor for dengue hospitalizations in Can Tho. To better understand proximate factors mediating this association, this study examines weather variables in relation to dengue hospitalization rates, vector indices, container productivity and larval elimination and mosquito avoidance behaviors.\n\nMethodsFour hundred households were sampled bimonthly for one year in Can Tho. Vector indices of the immature forms of the dengue vector, Aedes aegypti, and the productivity of different types of household containers were determined. Dengue hospitalization rates were determined for the study period. Associations between these variables and mean temperature, relative humidity, precipitation, and the number of hours of sun were estimated using mixed effects Poisson regression analysis. Relative productivity of containers was determined by collecting Ae. aegypti pupae using a sweep method and adjusting by a calibration factor. Ae. aegypti larval density risk factors were determined using multivariate generalized estimating equations with a negative binomial distribution. To examine possible mechanisms mediating the relationship between climate, vectors and dengue, we also interviewed households about mosquito avoidance and larval elimination behaviors.\n\nResultsThe house-(HI), container-(CI), Breteau (BI), and pupal (PI) indices were associated with relative humidity (1-month lag, IRRHI=1.10 (95% CI 1.06, 1.13) per 1% increase), IRRCI=1.10 (95% CI 1.02, 1.19), IRRBI=1.17 (95% CI 1.14, 1.21), IRRPI=1.12 (95% CI 1.10, 1.14)). Vector indices were also associated with precipitation (1-month lag) and to a lesser degree, hours of sun and mean temperature. Ae. aegypti larval density was associated with not cleaning water storage containers (RR=2.50, 95% CI 1.59, 3.66), not having access to municipal waste pick-up (RR=3.15, 95% CI2.09, 4.75), disheveled clothes in the home (RR=1.85, 95% CI 1.24, 2.74) and season (RR[rainy season]=3.10, 95% CI 2.18-4.48). The most productive containers were water storage containers (relative pupal productivity 87%). Dengue hospitalization rates were associated with relative humidity (2-month lag, IRR=1.11 (95% CI 1.06, 1.17) per 1% increase). Only the PI (1-month lag) was significantly associated with dengue hospitalization rates (IRR 1.04, 95% CI 1.00, 1.07). Mosquito avoidance behaviors were more frequent in the dry season (92.5% vs. 86.0% of interviewees endorsed one or more forms of mosquito prevention, p<0.001). There was also less use of larval elimination strategies (39.2% vs. 50.5%, p<0.001) during the rainy versus the dry season.\n\nConclusionOur study reveals a strong effect of relative humidity on vector indices and dengue hospitalization rates. This may be due to the mosquitos vulnerability to desiccation, and the association warrants further study. Our findings also demonstrate, however, that during the rainy season when mosquito prevention is most needed, the use of fans, repellant coils and maintenance of water storage containers is actually reduced. Water storage containers were by far the most productive of pupae, and should be targeted in vector control activities.\n\nAuthor summaryClimate plays an important role in the geographic distribution and burden of disease due to dengue, owing to the vector and virus sensitivity to temperature, humidity, and rainfall. In the Mekong Delta in Vietnam, where dengue poses a significant health burden, average temperatures have increased by 0.5{degrees}C since 1980. To better understand the influence of climate on dengue, this study examines its influence on dengue hospitalization rates, vector breeding behavior and human mosquito avoidance behaviors. We sampled 400 households every 2 months for one year for the presence of the dengue vector, Aedes aegypti, and the productivity of different types of household containers. Human mosquito avoidance behaviors, such as the use of fans, mosquito repellant, and larval elimination strategies were also recorded. The association between dengue hospitalizations, mean temperature, relative humidity, precipitation, and the number of hours of sun were established, and risk factors for the abundance of Ae. aegypti larvae were determined. We found that relative humidity is positively associated with the presence of Ae. aegypti immature forms, and that large jars used for water storage serve as the most important source of this vector. We also determined that people engage in mosquito avoidance/larval elimination strategies more frequently in the dry season versus the rainy season, despite increased vector breeding and dengue hospitalizations during the rainy season. This temporal disconnect between peak vector activity and dengue hospitalization rates vis-a-vis mosquito control strategies is a potential area for intervention.

epidemiology

Socioeconomic factors associated with dysentery in children under-five years from developing countries

ObjectiveDysentery represents 10% of all causes of acute diarrhea in the world and recognizing the implied proximal and distal social factors at different levels would impact on every related outcome. Our purpose is to identify mother, household and country characteristics that favor the presence of dysentery in children under 5 years old.\n\nMethodsWe conducted a multilevel analysis of data from phase V of the Demographic and Health Survey and the World Bank, which included 38,762 children from 33 countries.\n\nResultsPrevalence of dysentery was 14.74%. GDP per-capita was negative associated (OR= 0.75; 95% CI 0.71-0.78) and Gini index was positive associated (OR= 1.23; 95% CI 1.19-1.28). Additionally, child age (OR= 0.99; 95% CI 0.99-1.00), mother age (OR= 1.01; 95% CI 1.00-1.01), employed mother (OR= 1.11; 95% CI 1.02-1.20), and number of household members (OR= 1.02; 95% CI 1.01-1.03) have significant positive associations with the presence of dysentery, while complete immunization schedule (OR= 0.88; 95% CI 0.81-0.96), duration of breastfeeding (OR= 0.81; 95% CI 0.75-0.89), and type of residence (OR= 0.87; 95% CI 0.79-0.97) have significant negative associations with having the illness. Finally, each of the categories of wealth index showed a significant association with dysentery (p-value < 0.001).\n\nConclusionsLower per capita GDP and higher Gini coefficient are associated with the development of dysentery, regardless of characteristics of children, their mother, and household. Future and present public health programs should address these issues in order to impact on the occurrence of this illness.\n\nAuthor summaryDysentery represents 10% of all causes of acute diarrheal disease. Diarrhea is the fifth cause of worldwide death in children under five years old. It is particularly important to assess and prevent this condition because the early years of life are critical since it is the period when the brain develops most rapidly and has a high capacity for change. Complications associated with dysentery such as malnutrition and convulsive episodes could have a negative effect in this aspect.\n\nOur purpose is to identify the country proximal and distal socioeconomic factors that favor the presence of dysentery in children under five years old from low and middle-income developing countries in order to impact on the occurrence of this illness and its related outcomes. Studying associated factors with developing dysentery during an episode of acute diarrhea could be the base upon which we can diminish mortality from this illness through national policies to impact on national, community and household aspects.

epidemiology