Global distribution maps of the leishmaniases

The leishmaniases are vector-borne diseases that have a broad global distribution throughout much of the Americas, Africa, and Asia. Despite representing a significant public health burden, our understanding of the global distribution of the leishmaniases remains vague, reliant upon expert opinion and limited to poor spatial resolution. A global assessment of the consensus of evidence for leishmaniasis was performed at a sub-national level by aggregating information from a variety of sources. A database of records of cutaneous and visceral leishmaniasis occurrence was compiled from published literature, online reports, strain archives, and GenBank accessions. These, with a suite of biologically relevant environmental covariates, were used in a boosted regression tree modelling framework to generate global environmental risk maps for the leishmaniases. These high-resolution evidence-based maps can help direct future surveillance activities, identify areas to target for disease control and inform future burden estimation efforts. DOI: http://dx.doi.org/10.7554/eLife.02851.00

A new world malaria map: Plasmodium falciparum endemicity in 2010

Background: transmission intensity affects almost all aspects of malaria epidemiology and the impact of malaria on human populations. Maps of transmission intensity are necessary to identify populations at different levels of risk and to evaluate objectively options for disease control. To remain relevant operationally, such maps must be updated frequently. Following the first global effort to map Plasmodium falciparum malaria endemicity in 2007, this paper describes the generation of a new world map for the year 2010. This analysis is extended to provide the first global estimates of two other metrics of transmission intensity for P. falciparum that underpin contemporary questions in malaria control: the entomological inoculation rate (PfEIR) and the basic reproductive number (PfR). Methods: annual parasite incidence data for 13,449 administrative units in 43 endemic countries were sourced to define the spatial limits of P. falciparum transmission in 2010 and 22,212 P. falciparum parasite rate (PfPR) surveys were used in a model-based geostatistical (MBG) prediction to create a continuous contemporary surface of malaria endemicity within these limits. A suite of transmission models were developed that link PfPR to PfEIR and PfR and these were fitted to field data. These models were combined with the PfPR map to create new global predictions of PfEIR and PfR. All output maps included measured uncertainty. Results: an estimated 1.13 and 1.44 billion people worldwide were at risk of unstable and stable P. falciparum malaria, respectively. The majority of the endemic world was predicted with a median PfEIR of less than one and a median PfRc of less than two. Values of either metric exceeding 10 were almost exclusive to Africa. The uncertainty described in both PfEIR and PfR was substantial in regions of intense transmission. Conclusions: the year 2010 has a particular significance as an evaluation milestone for malaria global health policy. The maps presented here contribute to a rational basis for control and elimination decisions and can serve as a baseline assessment as the global health community looks ahead to the next series of milestones targeted at 20

Influence of El Niño-Southern Oscillation on Global Coastal Flooding

Anomalous atmosphere-ocean conditions in the tropical Pacific associated with the El Niño-Southern Oscillation (ENSO) drive interannual variations in mean and extreme sea levels. Climate change may lead to more frequent extreme ENSO events in the future. Therefore, it is important to enhance our understanding of ENSO's influence on coastal flood impacts. We assessed ENSO's influence on extreme sea levels using a global reanalysis of tides and storm surges. This allows for a full coverage of the global coastline from 1979 to 2014. A mean sea level component is added to account for steric effects. This results in a substantial improvement in the representation of the seasonal and interannual variability. Our results show significant correlations across the Pacific between ENSO and extreme sea levels (expressed as 95th annual percentiles), which is consistent with previous studies based on tide gauge observations. Average anomalies in the annual percentiles over El Niño years compared to neutral years show similar patterns. When examining total sea levels, results are largely statistically insignificant. This is because in many regions large tidal variability dominates over the other components. Combining sea levels with an inundation and impact model shows that ENSO has a significant but small effect on the number of people potentially exposed to flooding at the globally aggregated scale. Our results demonstrate that a model-based approach allows for an assessment of the influence of ENSO on coastal flood impacts and could be used to assess impacts of future changes in ENSO

Source code for analysis of the zoonotic niche of Ebolavirus

R source code used to perform the majority of the analysis for the eLife paper on mapping the zoonotic niche of Ebola virus disease in Africa. It will help the user to scrutinise the methodological approaches used, but cannot be used to fully reproduce the analysis, since the analysis relies on several very large data files (raster imagery, occurrence data etc.) The code is designed to run on a 64-core machine so the model fitting may slow on some machines