Forest cover estimation in Ireland using radar remote sensing: a comparative analysis of forest cover assessment methodologies

Quantification of spatial and temporal changes in forest cover is an essential component of forest monitoring programs. Due to its cloud free capability, Synthetic Aperture Radar (SAR) is an ideal source of information on forest dynamics in countries with near-constant cloud-cover. However, few studies have investigated the use of SAR for forest cover estimation in landscapes with highly sparse and fragmented forest cover. In this study, the potential use of L-band SAR for forest cover estimation in two regions (Longford and Sligo) in Ireland is investigated and compared to forest cover estimates derived from three national (Forestry2010, Prime2, National Forest Inventory), one pan-European (Forest Map 2006) and one global forest cover (Global Forest Change) product. Two machine-learning approaches (Random Forests and Extremely Randomised Trees) are evaluated. Both Random Forests and Extremely Randomised Trees classification accuracies were high (98.1–98.5%), with differences between the two classifiers being minimal (<0.5%). Increasing levels of post classification filtering led to a decrease in estimated forest area and an increase in overall accuracy of SAR-derived forest cover maps. All forest cover products were evaluated using an independent validation dataset. For the Longford region, the highest overall accuracy was recorded with the Forestry2010 dataset (97.42%) whereas in Sligo, highest overall accuracy was obtained for the Prime2 dataset (97.43%), although accuracies of SAR-derived forest maps were comparable. Our findings indicate that spaceborne radar could aid inventories in regions with low levels of forest cover in fragmented landscapes. The reduced accuracies observed for the global and pan-continental forest cover maps in comparison to national and SAR-derived forest maps indicate that caution should be exercised when applying these datasets for national reporting

Machine Learning and Integrative Analysis of Biomedical Big Data.

Recent developments in high-throughput technologies have accelerated the accumulation of massive amounts of omics data from multiple sources: genome, epigenome, transcriptome, proteome, metabolome, etc. Traditionally, data from each source (e.g., genome) is analyzed in isolation using statistical and machine learning (ML) methods. Integrative analysis of multi-omics and clinical data is key to new biomedical discoveries and advancements in precision medicine. However, data integration poses new computational challenges as well as exacerbates the ones associated with single-omics studies. Specialized computational approaches are required to effectively and efficiently perform integrative analysis of biomedical data acquired from diverse modalities. In this review, we discuss state-of-the-art ML-based approaches for tackling five specific computational challenges associated with integrative analysis: curse of dimensionality, data heterogeneity, missing data, class imbalance and scalability issues

Integration of LIDAR and IFSAR for mapping

LiDAR and IfSAR data is now widely used for a number of applications, particularly those needing a digital elevation model. The data is often complementary to other data such as aerial imagery and high resolution satellite data. This paper will review the current data sources and the products and then look at the ways in which the data can be integrated for particular applications. The main platforms for LiDAR are either helicopter or fixed wing aircraft, often operating at low altitudes, a digital camera is frequently included on the platform, there is an interest in using other sensors such as 3 line cameras of hyperspectral scanners. IfSAR is used from satellite platforms, or from aircraft, the latter are more compatible with LiDAR for integration. The paper will examine the advantages and disadvantages of LiDAR and IfSAR for DEM generation and discuss the issues which still need to be dealt with. Examples of applications will be given and particularly those involving the integration of different types of data. Examples will be given from various sources and future trends examined

National Forest Biomass Mapping Using the Two-Level Model

This article uses the two-level model (TLM) to predict above-ground biomass (AGB) from TanDEM-X synthetic aperture radar (SAR) data for Sweden. The SAR data were acquired between October 2015 and January 2016 and consisted of 420 scenes. The AGB was estimated from forest height and canopy density estimates obtained from TLM inversion with a power law model. The model parameters were estimated separately for each satellite scene. The prediction accuracy at stand-level was evaluated using field inventoried references from entire Sweden 2017, provided by a forestry company. AGB estimation performance varied throughout the country, with smaller errors in the north and larger in the south, but when the errors were expressed in relative terms, this pattern vanished. The error in terms of root mean square error (RMSE) was 45.6 and 27.2 t/ha at the plot- and stand-level, respectively, and the corresponding biases were -8.80 and 11.2 t/ha. When the random errors related to using sampled field references were removed, the RMSE decreased about 24% to 20.7 t/ha at the stand-level. Overall, the RMSE was of similar order to that obtained in a previous study (27-30 t/ha), where one linear regression model was used for all scenes in Sweden. It is concluded that, using the power law model with parameters estimated for each scene, the scene-wise variations decreased

Molecular cytogenetic characterisation of Salix viminalis L. using repetitive DNA sequences

Abstract Salix viminalis L. (2n=38) is a diploid dicot species belonging to the Salix genus of the Salicaceae family. This short-rotation woody crop is one of the most important renewable bioenergy resources worldwide. In breeding for high biomass productivity, limited knowledge is available on the molecular cytogenetics of willow, which could be combined with genetic linkage mapping. The present paper describes the adaptation of a fluorescence in situ hybridisation (FISH) protocol as a new approach to analyse the genomic constitution of Salix viminalis using the heterologous DNA clones pSc119.2, pTa71, pTa794, pAs1, Afafamily, pAl1, HT100.3, ZCF1 and the GAA microsatellite marker. Three of the nine probes showed unambiguous signals on the metaphase chromosomes. FISH analysis with the pTa71 probe detected one major 18S-5.8S-26S rDNA locus on the short arm of one chromosome pair; however, the pTa794 rDNA site was not visible. One chromosome pair showed a distinct signal around the centromeric region after FISH with the telomere-specific DNA clone HT100.3. Two chromosome pairs were found to have pAs1 FISH signals, which represent a D-genome-specific insert from Aegilops tauschii. Based on the FISH study, a set of chromosomes with characteristic patterns is presented, which could be used to establish the karyotype of willow species

Estimation of change in forest variables using synthetic aperture radar

Large scale mapping of changes in forest variables is needed for both environmental monitoring, planning of climate actions and sustainable forest management. Remote sensing can be used in conjunction with field data to produce wall-to-wall estimates that are practically impossible to produce using traditional field surveys. Synthetic aperture radar (SAR) can observe the forest independent of sunlight, clouds, snow, or rain, providing reliable high frequency coverage. Its wavelength determines the interaction with the forest, where longer wavelengths interact with larger structures of the trees, and shorter wavelengths interact mainly with the top part of the canopy, meaning that it can be chosen to fit specific applications. This thesis contains five studies conducted on the Remningstorp test site in southern Sweden. Studies I – III predicted above ground biomass (AGB) change using long wavelength polarimetric P- (in I) and L-band (in I – III) SAR data. The differences between the bands were small in terms of prediction quality, and the HV polarization, just as for AGB state prediction, was the polarization channel most correlated with AGB change. A moisture correction for L-band data was proposed and evaluated, and it was found that certain polarimetric measures were better for predicting AGB change than all of the polarization channels together. Study IV assessed the detectability of silvicultural treatments in short wavelength TanDEM-X interferometric phase heights. In line with earlier studies, only clear cuts were unambiguously distinguishable. Study V predicted site index and stand age by fitting height development curves to time series of TanDEM-X data. Site index and age were unbiasedly predicted for untreated plots, and the RMSE would likely decrease with longer time series. When stand age was known, SI was predicted with an RMSE comparable to that of the field based measurements. In conclusion, this thesis underscores SAR data's potential for generalizable methods for estimation of forest variable changes