Modelling forest biodiversity using remote sensing

M-GEO
M-SE
GEM
Potential supervisors
M-SE Core knowledge areas
Spatial Information Science (SIS)
Spatial Planning for Governance (SPG)
Additional Remarks

The topic is also suitable for GEM students in track 3 – GEM for Ecosystems & Natural Resources.

A suitable candidate should be interested in multispectral, hyperspectral remote sensing, and forest ecology. No prior knowledge on eDNA is required. 

Figure from: https://doi.org/10.1080/01431161.2025.2464958

Topic description

Forests are among the most diverse ecosystems on our planet. Their various layers, from the soil to the canopy, contain thousands of organisms, including plants, birds, mammals, microbes, and protists. In particular, microbial and infaunal communities show remarkable diversity and play a critical role in key ecosystem services such as nutrient cycling and carbon sequestration. However, assessing the diversity of these communities, especially across large spatial scales, remains challenging due to the intensive fieldwork and laboratory analyses required. Recent advances in remote sensing and machine learning now enable the upscaling of point-sample biodiversity data to landscape scales. Remote sensing products are especially valuable for such assessments as they capture broad spatial patterns and provide consistent monitoring of environmental changes over extensive areas with high efficiency. These products offer detailed insights into forest canopy characteristics, including biochemical properties (e.g., chlorophyll and water content) and biophysical attributes such as leaf area index (LAI), thereby shedding light on habitat conditions. This thesis topic aims to integrate microbial and/or infaunal occurrence data with remote sensing products to explore the diversity of mixed forest ecosystems at landscape scales.

Topic objectives and methodology

This study aims to determine whether patterns in the occurrence and diversity of microbial and/or infaunal taxa occupying the forest canopy or soil can be predicted using image spectroscopy data from DESIS satellite. The student will apply multivariate models and machine learning to link in-situ biodiversity data, derived from environmental DNA data collected during 2020–2021 field campaigns, with image spectroscopy data from the DESIS satellite, aiming to predict and assess biodiversity patterns in mixed forest ecosystems.

References for further reading

Adiningrat, D. P., Siegenthaler, A., Schlund, M., et al. (2025). Effect of forest structural attributes on soil microbial diversity in mixed temperate forests. Plant and Soil. https://doi.org/10.1007/s11104-025-07907-4

Duan, Y., Siegenthaler, A., Skidmore, A. K., et al. (2024). Forest top canopy bacterial communities are influenced by elevation and host tree traits. Environmental Microbiome, 19(21). https://doi.org/10.1186/s40793-024-00565-6

Skidmore, A. K., Abdullah, H., Siegenthaler, A., Wang, T., Adiningrat, D. P., Rousseau, M., … de Groot, G. A. (2025). eDNA biodiversity from space: Predicting soil bacteria and fungi alpha diversity in forests using DESIS satellite remote sensing. International Journal of Remote Sensing, 1–31. https://doi.org/10.1080/01431161.2025.2464958

Skidmore, A. K., Siegenthaler, A., Wang, T., Darvishzadeh, R., Zhu, X., Chariton, A., & de Groot, G. A. (2022). Mapping the relative abundance of soil microbiome biodiversity from eDNA and remote sensing. Science of Remote Sensing, 6, 100065. https://doi.org/10.1016/j.srs.2022.100065

How can topic be adapted to Spatial Engineering

This topic addresses the potential of remote sensing and environmental DNA (eDNA) to predict and map the distribution and abundance of microbial/ infaunal communities in forest.