Application of Hyperspectral Image Data for Species Detection and Biomass Estimation of Submerged Macrophytes in UK Chalk Streams

Expected improvements of spatial and spectral resolution of remote sensing data in the near future will finally enable their application for the monitoring of some of the UK’s most biodiverse ecosystems: lowland chalk streams. The possibility to remotely map cover extent and submergence depth of chalk stream macrophytes could improve biomass estimates and help understanding of macrophyte community dynamics. This study aims to improve Ranunculus (Water crowfoot) submergence depth estimates from a Specim Eagle hyperpsectral image taken of the River Frome in Dorset, UK by combining data from previous studies. NDVI values calculated from Ranunculus vegetation spectra measured with a GER1500 show a depth dependence, which corresponds well with modelled values. NDVI values extracted from the image data do not show a similar relationship. The results highlight the difficulty of obtaining accurate submergence depth information when vegetation cover and submergence depth vary at sub-pixel level. Data quality issues also hamper image analysis at this level of detail. Blurring/smearing of the data will have affected the NDVI-submergence depth relationship derived from the image. An attempt was made to improve the data quality by estimating an empirical Point Spread Function (PSF) from the bank vegetation-river water interface and trialling different deconvolution algorithms and in put parameters. The application of this method was unsuccessful and specified some of the limitations of a technique that has been successfully applied in other situations

Object-based Analysis and Multispectral Low-altitude Remote Sensing for Low-cost Mapping of Chalk Stream Macrophytes

Their small size and high biodiversity have until now made UK chalk streams unsuitable subjects for study with remote sensing techniques. Future technological developments are however likely to change this. The study described in this paper shows how high resolution multispectral images taken with an off-the-shelve, infrared sensitive digital camera, can give a first insight into future opportunities for mapping and monitoring of submerged chalk stream environments. The high resolution multispectral images have been used in combination with Object Based Image Analysis (OBIA) techniques to map submerged vegetation. Preliminary results show that the Near Infrared Red information recorded by the camera greatly improves the classification of individual macrophyte species. The benefit of the object-based image analysis approach is at the presented stage only limited, but a first attempt at creating a robust rule set has been applied to photos taken at two different field sites with some success. The analysis also showed how texture features are useful for the separability between macrophyte classes. Overall the results are promising for further applications of remote sensing techniques to chalk streams as well as for application of the low cost sensor set-up

Assessing the Viability of Complex Electrical Impedance Tomography (EIT) with a Spatially Distributed Sensor Array for Imaging of River Bed Morphology: a Proof of Concept (Study)

This report was produced as part of a NERC funded ‘Connect A’ project to establish a new collaborative partnership between the University of Worcester (UW) and Q-par Angus Ltd. The project aim was to assess the potential of using complex Electrical Impedance Tomography (EIT) to image river bed morphology. An assessment of the viability of sensors inserted vertically into the channel margins to provide real-time or near real-time monitoring of bed morphology is reported. Funding has enabled UW to carry out a literature review of the use of EIT and existing methods used for river bed surveys, and outline the requirements of potential end-users. Q-par Angus has led technical developments and assessed the viability of EIT for this purpose. EIT is one of a suite of tomographic imaging techniques and has already been used as an imaging tool for medical analysis, industrial processing and geophysical site survey work. The method uses electrodes placed on the margins or boundary of the entity being imaged, and a current is applied to some and measured on the remaining ones. Tomographic reconstruction uses algorithms to estimate the distribution of conductivity within the object and produce an image of this distribution from impedance measurements. The advantages of the use of EIT lie with the inherent simplicity, low cost and portability of the hardware, the high speed of data acquisition for real-time or near real-time monitoring, robust sensors, and the object being monitored is done so in a non-invasive manner. The need for sophisticated image reconstruction algorithms, and providing images with adequate spatial resolution are key challenges. A literature review of the use of EIT suggests that to date, despite its many other applications, to the best of our knowledge only one study has utilised EIT for river survey work (Sambuelli et al 2002). The Sambuelli (2002) study supported the notion that EIT may provide an innovative way of describing river bed morphology in a cost effective way. However this study used an invasive sensor array, and therefore the potential for using EIT in a non-invasive way in a river environment is still to be tested. A review of existing methods to monitor river bed morphology indicates that a plethora of techniques have been applied by a range of disciplines including fluvial geomorphology, ecology and engineering. However, none provide non-invasive, low costs assessments in real-time or near real-time. Therefore, EIT has the potential to meet the requirements of end users that no existing technique can accomplish. Work led by Q-par Angus Ltd. has assessed the technical requirements of the proposed approach, including probe design and deployment, sensor array parameters, data acquisition, image reconstruction and test procedure. Consequently, the success of this collaboration, literature review, identification of the proposed approach and potential applications of this technique have encouraged the authors to seek further funding to test, develop and market this approach through the development of a new environmental sensor

Mismatch between conservation needs and actual representation of lions from West and Central Africa in in situ and ex situ conservation

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Sediment Budget for Cane Land on the Lower Herbert River Floodplain, North Queensland, Australia

Land use in the river catchments of tropical North Queensland appears to have increased the export of sediment and nutrients to the coast. Although evidence of harmful effect of sediment on coastal and riverine ecosystems is limited, there is a growing concern about its possible negative impacts. Sugarcane cultivation on the floodplains of the tropical North Queensland river catchments is thought to be an important source of excess sediment in the river drainage systems. Minimum-tillage, trash blanket harvesting has been shown to reduce erosion from sloping sugarcane fields, but in the strongly modified floodplain landscape other elements (e.g. drains, water furrows and headlands) could still be important sediment sources. The main objectives of this thesis are to quantify the amount of sediment coming from low-lying cane land and identify the important sediment sources in the landscape. The results of this thesis enable sugarcane farmers to take targeted measures for further reduction of the export of sediment and nutrients. Sediment budgets provide a useful approach to identify and quantify potential sediment sources. For this study a sediment budget is calculated for a part of the Ripple Creek catchment, which is a sub-catchment of the Lower Herbert River. The input of sediment from all potential sources in cane land and the storage of sediment within the catchment have been quantified and compared with the output of sediment from the catchment. Input from, and storage on headlands, main drains, minor drains and water furrows, was estimated from erosion pin and surface profile measurements. Input from forested upland, input from fields and the output at the outlet of the catchment was estimated with discharge data from gauged streams and flumes. Data for the sediment budget were collected during two ‘wet’-seasons: 1999-2000 and 2000-2001. The results of the sediment budget indicate that this tropical floodplain area is a net source of sediment. Plant cane fields, which do not have a protective trash cover, were the largest net source of sediment during the 1999-2000 season. Sediment input from water furrows was higher, but there was also considerable storage of sediment in this landscape element. Headlands tend to act as sinks. The source or sink function of drains is less clear, but seems to depend on their shape and vegetation cover. An important problem in this study is the high uncertainty in the estimates of the sediment budget components and is, for example, likely to be the cause of the imbalance in the sediment budget. High uncertainties have particularly affected the results from the 20002001 season. The main source of uncertainty is spatial variation in the erosion and deposition processes. Uncertainty has to be taken into consideration when interpreting the budget results. The observation of a floodplain as sediment source contradicts the general understanding that floodplains are areas of sediment storage within river catchments. A second objective of this thesis was therefore to provide an answer to the question: how can floodplains in the tropical North Queensland catchments can be a source of sediment? In geomorphic literature various factors have been pointed out, that could control floodplain erosion processes. However, their importance is not 'uniquely identified'. Among the most apparent factors are the stream power of the floodwater and the resistance of the floodplain surface both through its sedimentary composition and the vegetation cover. If the cultivated floodplains of the North Queensland catchments are considered in the light of these factors, there is a justified reason to expect them to be a sediment source. Cultivation has lowered the resistance of their surface; increased drainage has increased the drainage velocity and flood control structures have altered flooding patterns. For the Ripple Creek floodplain four qualitative scenarios have been developed that describe erosion and deposition under different flow conditions. Two of these scenarios were experienced during the budget study, involving runoff from local hillslopes and heavy rainfall, which caused floodplain erosion. In the longer term larger flood events, involving floodwater from the Herbert River, may lead to different erosion and deposition processes. The present study has shown that the tropical floodplain of the Herbert River catchment can be a source of sediment under particular flow conditions. It has also shown which elements in the sugarcane landscape are the most important sediment sources under these conditions. This understanding will enable sugarcane farmers to further reduce sediment export from cane land and prevent the negative impact this may have on the North Queensland coastal ecosystems

Depth Estimation of Submerged Aquatic Vegetation in Clear Water Streams Using Low-Altitude Optical Remote Sensing

UAVs and other low-altitude remote sensing platforms are proving very useful tools for remote sensing of river systems. Currently consumer grade cameras are still the most commonly used sensors for this purpose. In particular, progress is being made to obtain river bathymetry from the optical image data collected with such cameras, using the strong attenuation of light in water. No studies have yet applied this method to map submergence depth of aquatic vegetation, which has rather different reflectance characteristics from river bed substrate. This study therefore looked at the possibilities to use the optical image data to map submerged aquatic vegetation (SAV) depth in shallow clear water streams. We first applied the Optimal Band Ratio Analysis method (OBRA) of Legleiter et al. (2009) to a dataset of spectral signatures from three macrophyte species in a clear water stream. The results showed that for each species the ratio of certain wavelengths were strongly associated with depth. A combined assessment of all species resulted in equally strong associations, indicating that the effect of spectral variation in vegetation is subsidiary to spectral variation due to depth changes. Strongest associations (R2-values ranging from 0.67 to 0.90 for different species) were found for combinations including one band in the near infrared (NIR) region between 825 and 925 nm and one band in the visible light region. Currently data of both high spatial and spectral resolution is not commonly available to apply the OBRA results directly to image data for SAV depth mapping. Instead a novel, low-cost data acquisition method was used to obtain six-band high spatial resolution image composites using a NIR sensitive DSLR camera. A field dataset of SAV submergence depths was used to develop regression models for the mapping of submergence depth from image pixel values. Band (combinations) providing the best performing models (R2-values up to 0.77) corresponded with the OBRA findings. A 10% error was achieved under sub-optimal data collection conditions, which indicates that the method could be suitable for many SAV mapping applications

Vocal foragers and silent crowds: context-dependent vocal variation in Northeast Atlantic long-finned pilot whales

13 pages, 6 figures, 3 tables.-- Fleur Visser ... et al.-- This article is an open access publicationVocalisations form a key component of the social interactions and foraging behaviour of toothed whales. We investigated changes in calling and echolocation behaviour of long-finned pilot whales between foraging and non-foraging periods, by combining acoustic recordings and diving depth data from tagged individuals with concurrent surface observations on social behaviour of their group. The pilot whales showed marked vocal variation, specific to foraging and social context. During periods of foraging, pilot whales showed more vocal activity than during non-foraging periods (rest, travel). In addition to the expected increase in echolocation activity, call rates also increased, suggesting that pilot whales communicate more during foraging. Furthermore, calls with multiple inflections occurred more often immediately before and after foraging dives and during the early descent and late ascent phases of foraging dives. However, these calls were almost never detected at diving depths of the tagged whale beyond 350 m. Calls with no or few inflections were produced at all times, irrespective of diving depth of the tagged whale. We discuss possible explanations for the distinct vocal variation associated with foraging periods. In addition, during non-foraging periods, the pilot whales were found to be more silent (no calling or echolocation) in larger, more closely spaced groups. This indicates that increased levels of social cohesion may release the need to stay in touch acoustically.This study was financially supported by the US Office of Naval Research, The Netherlands Ministry of Defence, the Norwegian Research Council and the Norwegian Ministry of DefencePeer reviewe