| Literature DB >> 31810239 |
Bipin Kumar Acharya1, Wei Chen2, Zengliang Ruan1, Gobind Prasad Pant3,4, Yin Yang1, Lalan Prasad Shah5, Chunxiang Cao6, Zhiwei Xu7, Meghnath Dhimal8, Hualiang Lin1.
Abstract
Being a globally emerging mite-borne zoonotic disease, scrub typhus is a serious public health concern in Nepal. Mapping environmental suitability and quantifying the human population under risk of the disease is important for prevention and control efforts. In this study, we model and map the environmental suitability of scrub typhus using the ecological niche approach, machine learning modeling techniques, and report locations of scrub typhus along with several climatic, topographic, Normalized Difference Vegetation Index (NDVI), and proximity explanatory variables and estimated population under the risk of disease at a national level. Both MaxEnt and RF technique results reveal robust predictive power with test The area under curve (AUC) and true skill statistics (TSS) of above 0.8 and 0.6, respectively. Spatial prediction reveals that environmentally suitable areas of scrub typhus are widely distributed across the country particularly in the low-land Tarai and less elevated river valleys. We found that areas close to agricultural land with gentle slopes have higher suitability of scrub typhus occurrence. Despite several speculations on the association between scrub typhus and proximity to earthquake epicenters, we did not find a significant role of proximity to earthquake epicenters in the distribution of scrub typhus in Nepal. About 43% of the population living in highly suitable areas for scrub typhus are at higher risk of infection, followed by 29% living in suitable areas of moderate-risk, and about 22% living in moderately suitable areas of lower risk. These findings could be useful in selecting priority areas for surveillance and control strategies effectively.Entities:
Keywords: Nepal; machine learning; scrub typhus; suitability mapping
Mesh:
Year: 2019 PMID: 31810239 PMCID: PMC6926588 DOI: 10.3390/ijerph16234845
Source DB: PubMed Journal: Int J Environ Res Public Health ISSN: 1660-4601 Impact factor: 3.390
Figure 1Flowchart summarizing the methodology used in this study.
Figure 2Location of the study area showing the elevation gradient and distribution of presence and background point of scrub typhus occurrence in Nepal.
Data source of environmental variables for the ecological niche model of scrub typhus.
| Variable Category | Variables | Description | Sources |
|---|---|---|---|
| Topographical | Elevation | Elevation (m) | SRTM 90 m digital elevation data |
| Slope | Slope(degree) | SRTM 90 m digital elevation data, | |
| Aspect | Aspect | SRTM 90 m digital elevation data, | |
| Climate | Bio2 | Mean diurnal range of temperature | Worldclim Geoportal, |
| Bio3 | Isothermality | Worldclim Geoportal, | |
| Bio9 | Mean temperature of driest quarter | Worldclim Geoportal, | |
| Bio14 | Precipitation of driest months | Worldclim Geoportal, | |
| Bio16 | Precipitation of wettest quarter | Worldclim Geoportal, | |
| Bio19 | Precipitation of coldest quarter | Worldclim Geoportal, | |
| Proximity | Dist2Urban | Distance to urban area (km) | Landcover map 2010, |
| Dist2Cropland | Distance to cropland (km) | Landcover map 2010, | |
| Dist2Shrub | Distance to shrubland (km) | Land cover map 2010, | |
| Dist2Earthquake | Distance to earthquake epicenter (km) | Earthquake epicenter location between 2015–2017 with >5.5, | |
| NDVI | NDVI_min | Minimum NDVI during the study period 2015–2018 | MOD13A3, |
| NDVI_mean | Mean NDVI during the study period 2015–2018 | MOD13A3, | |
| NDVI_max | Maximum NDVI during the study period 2015–2018 | MOD13A3, |
Figure 3Spatial distribution of selected environmental factors used in mapping and modeling of scrub typhus disease risk in Nepal.
Model performance comparison by area under the curve (AUC) of receiver operating characteristic curve (ROC) and true skill statistic (TSS) values.
| Methods | AUC | TSS | ||
|---|---|---|---|---|
| Training | Test | Training | Test | |
|
| 0.84 | 0.84 | 0.62 | 0.60 |
|
| 0.86 | 0.86 | 0.65 | 0.58 |
Figure 4The relative importance of environmental variables in predicting the relative risk of scrub typhus.
Figure 5Marginal response curve plot of the four most important environmental factors for the occurrence of scrub typhus in Nepal. The x-axis shows the value of predictors, and the y-axis shows the value of predicted suitability. The shaded grey color shows the variability.
Figure 6Probability of occurrence of scrub typhus in Nepal using the (a) MaxEnt, (b) random forest, and (c) ensemble methods.
Estimated human population exposed at different levels of scrub typhus transmission suitability in Nepal.
| Class of Suitability | Suitability Cut-of Values | Area (Km2) | Area (%) | Population | Population (%) |
|---|---|---|---|---|---|
| Unsuitable | <0.18 | 63,817.68 | 43.35 | 1,116,808 | 6.06 |
| Moderately suitable | 0.18–0.35 | 34,528.66 | 23.46 | 4,031,218 | 21.87 |
| Suitable | 0.3–0.5 | 27,758.33 | 18.86 | 5,395,633 | 29.27 |
| Highly suitable | >0.52 | 21,076.31 | 14.32 | 7,887,215 | 42.79 |
| Total | 147,181 | 100.00 | 18,434,230 | 1000.00 |
Figure 7(a) Spatial distribution of population in Nepal in 2018 (people per pixel—PPP) and (b) environmental suitability classification of scrub typhus.