A novel low-cost plug-and-play multi-spectral LED based fluorometer, with application to chlorophyll detection.

In this paper a novel low-cost multi-spectral optical fluorometer is presented and evaluated. The device uses a range of LEDs in the blue and violet regions of the electromagnetic spectrum and a mini-spectrometer to detect the emitted fluorescence in the UV to IR spectrum region. Custom built electronics and software were designed to control the system and the components were housed in bespoke 3D printed parts. A number of known fluorophores were tested to determine the capabilities of the fluorometer. Application of the device is demonstrated for the detection of chlorophyll a (Chl a) from laboratory grown algae and from environmental samples while analytical performance is established using both in vivo and extracted Chl a fluorescence and by comparison with a benchtop fluorometer.

A Data-Driven Approach for Building the Profile of Water Storage Capacity of Soils.

The soil water storage capacity is critical for soil management as it drives crop production, soil carbon sequestration, and soil quality and health. It depends on soil textural class, depth, land-use and soil management practices; therefore, the complexity strongly limits its estimation on a large scale with conventional-process-based approaches. In this paper, a machine learning approach is proposed to build the profile of the soil water storage capacity. A neural network is designed to estimate the soil moisture from the meteorology data input. By taking the soil moisture as a proxy in the modelling, the training captures those impact factors of soil water storage capacity and their nonlinear interaction implicitly without knowing the underlying soil hydrologic processes. An internal vector of the proposed neural network assimilates the soil moisture response to meteorological conditions and is regulated as the profile of the soil water storage capacity. The proposed approach is data-driven. Since the low-cost soil moisture sensors have made soil moisture monitoring simple and the meteorology data are easy to obtain, the proposed approach enables a convenient way of estimating soil water storage capacity in a high sampling resolution and at a large scale. Moreover, an average root mean squared deviation at 0.0307m3/m3 can be achieved in the soil moisture estimation; hence, the trained model can be deployed as an alternative to the expensive sensor networks for continuous soil moisture monitoring. The proposed approach innovatively represents the soil water storage capacity as a vector profile rather than a single value indicator. Compared with the single value indicator, which is common in hydrology, a multidimensional vector can encode more information and thus has a more powerful representation. This can be seen in the anomaly detection demonstrated in the paper, where subtle differences in soil water storage capacity among the sensor sites can be captured even though these sensors are installed on the same grassland. Another merit of vector representation is that advanced numeric methods can be applied to soil analysis. This paper demonstrates such an advantage by clustering sensor sites into groups with the unsupervised K-means clustering on the profile vectors which encapsulate soil characteristics and land properties of each sensor site implicitly.

Sensors for Coastal and Ocean Monitoring.

In situ water monitoring sensors are critical to gain an understanding of ocean biochemistry and ecosystem health. They enable the collection of high-frequency data and capture ecosystem spatial and temporal changes, which in turn facilitate long-term global predictions. They are used as decision support tools in emergency situations and for risk mitigation, pollution source tracking, and regulatory monitoring. Advanced sensing platforms exist to support various monitoring needs together with state-of-the-art power and communication capabilities. To be fit-for-purpose, sensors must withstand the challenging marine environment and provide data at an acceptable cost. Significant technological advancements have catalyzed the development of new and improved sensors for coastal and oceanographic applications. Sensors are becoming smaller, smarter, more cost-effective, and increasingly specialized and diversified. This article, therefore, provides a review of the state-of-the art oceanographic and coastal sensors. Progress in sensor development is discussed in terms of performance and the key strategies used for achieving robustness, marine rating, cost reduction, and antifouling protection.

Establishment of an antifouling performance index derived from the assessment of biofouling on typical marine sensor materials.

Marine biofouling, known as the unwanted accumulation of living organisms on submerged surfaces, is one of the main factors affecting the operation, maintenance and data quality of water quality monitoring sensors. This can be a significant challenge for marine deployed infrastructure and sensors in water. When organisms attach to the mooring lines or other submerged surfaces of the sensor, they can interfere with the sensor's operation and accuracy. They can also add weight and drag to the mooring system, making it more difficult to maintain the desired position of the sensor. This increases the cost of ownership to the point where it becomes prohibitively expensive to maintain operational sensor networks and infrastructures. Furthermore, the analysis and quantification of biofouling is extremely complex as it is based on biochemical methods such as the analysis of pigments such as chlorophyll-a as a direct indicator of the biomass of photosynthetic organisms, dry weight, carbohydrate analysis and protein analysis among others. In this context, this study has developed a method to estimate biofouling quickly and accurately on different submerged materials used in the marine industry and specifically in sensor manufacturing like copper, titanium, fiberglass composite, different types of polyoxymethylene (POMC, POMH), polyethylene terephthalate glycol (PETG) and 316L-stainless steel. To do this, in situ images of fouling organisms were collected with a conventional camera and image processing algorithms and machine learning models trained were used to construct a biofouling growth model. The algorithms and models were implemented with Fiji-based Weka Segmentation software. A supervised clustering model was used to identify three types of fouling to quantify fouling on panels of different materials submerged in seawater over time. This method is easy, fast and cost-effective to classify biofouling in a more accessible and holistic way that could be useful for engineering applications.

Demonstrating the Potential of a Low-Cost Soil Moisture Sensor Network.

Soil moisture is a key parameter of the climate system as it relates to plant transpiration and photosynthesis and impacts land-atmosphere interactions. Recent developments have seen an increasing number of electromagnetic sensors available commercially (EM) for soil volumetric water content (θ). Their use is constantly expanding, and they are becoming increasingly used for agricultural, ecological, and geotechnical applications and climate research, providing decision support and high-resolution data for models and machine-learning algorithms. In this study, a soil moisture sensor network consisting of 10 Sense Cap capacitance-based sensors is evaluated. Analytical performance of the sensors was determined based on laboratory and field measurements with dielectric permittivity (ε) standards and soil media substrates. Sensor response normalisation to standards of known ε was found to reduce intersensor variability and provide robust estimates of θ in soil samples with known θ. Cross-comparison with a time-domain reflectometry (TDR) instrument carried out in two soil media demonstrates good agreement between the two probes throughout the tested range. The data communication performance of the network was evaluated in terms of packet drop rate at different ranges and sampling frequencies. It was noticed that the drop rate increased with distance from the gateway, while sampling frequency had no effect. Sources of errors associated with probe installation were identified and recommendations are provided for sensor deployment. The off-the-shelf all-in-one solution provided by Sense Cap is low cost, user friendly and suitable for implementation at temporal and spatial scales once the identified shortcomings are addressed. The evaluation presented aims to aid stakeholders and users involved in soil and land management practices including crop production, soil conservation, carbon sequestration and pollutants transport.

Antifouling Strategies for Sensors Used in Water Monitoring: Review and Future Perspectives.

Water monitoring sensors in industrial, municipal and environmental monitoring are advancing our understanding of science, aid developments in process automatization and control and support real-time decisions in emergency situations. Sensors are becoming smaller, smarter, increasingly specialized and diversified and cheaper. Advanced deployment platforms now exist to support various monitoring needs together with state-of-the-art power and communication capabilities. For a large percentage of submersed instrumentation, biofouling is the single biggest factor affecting the operation, maintenance and data quality. This increases the cost of ownership to the extent that it is prohibitive to maintain operational sensor networks and infrastructures. In this context, the paper provides a brief overview of biofouling, including the development and properties of biofilms. The state-of-the-art established and emerging antifouling strategies are reviewed and discussed. A summary of the currently implemented solutions in commercially available sensors is provided and current trends are discussed. Finally, the limitations of the currently used solutions are reviewed, and future research and development directions are highlighted.

Pilot Scale Study: First Demonstration of Hydrophobic Membranes for the Removal of Ammonia Molecules from Rendering Condensate Wastewater.

Hydrophobic membrane contactors represent a promising solution to the problem of recycling ammoniacal nitrogen (N-NH4) molecules from waste, water or wastewater resources. The process has been shown to work best with wastewater streams that present high N-NH4 concentrations, low buffering capacities and low total suspended solids. The removal of N-NH4 from rendering condensate, produced during heat treatment of waste animal tissue, was assessed in this research using a hydrophobic membrane contactor. This study investigates how the molecular composition of rendering condensate wastewater undergo changes in its chemistry in order to achieve suitability to be treated using hydrophobic membranes and form a suitable product. The main objective was to test the ammonia stripping technology using two types of hydrophobic membrane materials, polypropylene (PP) and polytetrafluoroethylene (PTFE) at pilot scale and carry out: (i) Process modification for NH3 molecule removal and (ii) product characterization from the process. The results demonstrate that PP membranes are not compatible with the condensate waste as it caused wetting. The PTFE membranes showed potential and had a longer lifetime than the PP membranes and removed up to 64% of NH3 molecules from the condensate waste. The product formed contained a 30% concentrated ammonium sulphate salt which has a potential application as a fertilizer. This is the first demonstration of hydrophobic membrane contactors for treatment of condensate wastewater.

Demonstration of an optical biosensor for the detection of faecal indicator bacteria in freshwater and coastal bathing areas.

ColiSense, an early warning system developed for Escherichia coli detection, is assessed using environmental samples. The system relies on the detection of ß-glucuronidase (GUS), a biomarker enzyme for E. coli. In contrast with other rapid GUS-based methods, ColiSense is the only method that uses 6-chloro-4-methyl-umbelliferyl-ß-D-glucuronide (6-CMUG) as a fluorogenic substrate. The system measures a direct kinetic response of extracted GUS, and the detection was carried out in the absence of particles or bacteria. It is necessary to evaluate the system with environmental samples to establish the relationship between faecal indicator bacteria E. coli and the response measured by the ColiSense. This paper presents the results of tests carried out with the ColiSense system for 2 trials, one conducted with freshwater samples collected from rivers in the Dublin area and a second conducted with seawater samples from coastal areas collected over the bathing season. A positive linear correlation was found between E. coli (MPN 100 mL-1) and ColiSense response (R2 = 0.85, N = 125, p < 0.01) for the seawater sample. A ColiSense response threshold was identified as 0-1.8 pmol min-1 100 mL-1, equivalent to 0-500 E. coli 100 mL-1. Using this threshold, 96.8% of the samples were correctly classified as being above or below 500 E. coli 100 mL-1 by the ColiSense system. Results presented demonstrate that the ColiSense system can be used as an early warning tool with potential for active management of bathing areas by providing results in 75 min from sample collection.

Assessment of Antifouling Potential of Novel Transparent Sol Gel Coatings for Application in the Marine Environment.

In recent years, there has become a growing need for the development of antifouling technology for application in the marine environment. The accumulation of large quantities of biomass on these surfaces cause substantial economic burdens within the marine industry, or adversely impact the performance of sensor technologies. Here, we present a study of transparent coatings with potential for applications on sensors or devices with optical windows. The focus of the study is on the abundance and diversity of biofouling organisms that accumulate on glass panels coated with novel transparent or opaque organically modified silicate (ORMOSIL) coatings. The diatom assessment was used to determine the effectiveness of the coatings against biofouling. Test panels were deployed in a marine environment in Galway Bay for durations of nine and thirteen months to examine differences in biofilm formation in both microfouling and macrofouling conditions. The most effective coating is one which consists of precursor, tetraethyl orthosilicate (HC006) that has a water contact angle > 100, without significant roughness (43.52 nm). However, improved roughness and wettability of a second coating, diethoxydimethylsilane (DMDEOS), showed real promise in relation to macrofouling reduction.

Protocol for the recovery and detection of Escherichia coli in environmental water samples.

To achieve active management of bathing areas and to reduce risk associated with the presence of fecal pollution, tests capable of rapid on-site assessment of microbiological water quality are required. A protocol for the recovery and detection of fecal pollution indicator bacteria, E. coli, using ß-glucuronidase (GUS) activity was developed. The developed protocol involves two main steps: sample preparation and GUS activity measurement. In the sample preparation step, syringe filters were used with a dual purpose, for the recovery and pre-concentration of E. coli from the water matrix and as µL reactors for bacteria lysis and GUS extraction. Subsequently, GUS activity was measured using a continuous fluorometric method developed previously. The optimum GUS recovery conditions for the sample preparation step were found to be 100 µL PELB (supplemented with 1 mg mL-1 lysozyme and 20 mM DTT) at 37 °C for 30 min. The protocol was evaluated on environmental samples (fresh and seawater) against an establish GUS assay method (Coliplage®). GUS activities corresponding to samples containing as low as 26 MPN E. coli 100 mL-1 were detected for the seawater sample and as low as 110 MPN E. coli 100 mL-1 for the freshwater samples. By comparison with the Coliplage® method, this protocol offered an improvement in the measured GUS activities of 3.1 fold for freshwater samples and 4.1 fold for seawater samples. Furthermore, the protocol developed here, has a time-to-result of 75 min, and successfully addresses the requirement for tests capable of rapid assessment of microbiological water quality.

ColiSense, today's sample today: A rapid on-site detection of ß-D-Glucuronidase activity in surface water as a surrogate for E. coli.

A sensitive field-portable fluorimeter with incubating capability and triplicate sample chambers was designed and built. The system was optimised for the on-site analysis of E. coli in recreational waters using fluorescent based enzyme assays. The target analyte was ß-D-Glucuronidase (GUS) which hydrolyses a synthetic substrate 6-Chloro-4-Methyl-Umbelliferyl-ß-D-Glucuronide (6-CMUG) to release the fluorescent molecule 6-Chloro-4-Methyl-Umbelliferyl (6-CMU). The system was calibrated with 6-CMU standards. A LOD of 5 nM and a resolution of less than 1 nM was determined while enzyme kinetic tests showed detection of activities below 1 pmol min(-1) mL(-1) of sample. A field portable sample preparation, enzyme extraction protocol and continuous assay were applied with the system to analyse freshwater and marine samples. Results from a one day field trial are shown which demonstrated the ability of the system to deliver results on-site within a 75 min period.

Continuous fluorometric method for measuring ß-glucuronidase activity: comparative analysis of three fluorogenic substrates.

E. coli ß-glucuronidase (GUS) activity assays are routinely used in fields such as plant molecular biology, applied microbiology and healthcare. Methods based on the optical detection of GUS using synthetic fluorogenic substrates are widely employed since they don't require expensive instrumentation and are easy to perform. In this study three fluorogenic substrates and their respective fluorophores were studied for the purpose of developing a continuous fluorometric method for GUS. The fluorescence intensity of 6-chloro-4-methyl-umbelliferone (6-CMU) at pH 6.8 was found to be 9.5 times higher than that of 4-methyl umbelliferone (4-MU) and 3.2 times higher than the fluorescence of 7-hydroxycoumarin-3-carboxylic acid (3-CU). Michaelis-Menten kinetic parameters of GUS catalysed hydrolysis of 6-chloro-4-methyl-umbelliferyl-ß-D-glucuronide (6-CMUG) were determined experimentally (Km = 0.11 mM, Kcat = 74 s(-1), Kcat/Km = 6.93 × 10(5) s(-1) M(-1)) and compared with the ones found for 4-methyl-umbelliferyl-ß-D-glucuronide (4-MUG) (Km = 0.07 mM, Kcat = 92 s(-1), Kcat/Km = 1.29 × 10(6) s(-1) M(-1)) and 3-carboxy-umbelliferyl-ß-D-glucuronide (3-CUG) (Km = 0.48 mM, Kcat = 35 s(-1), Kcat/Km = 7.40 × 10(4) s(-1) M(-1)). Finally a continuous fluorometric method based on 6-CMUG as a fluorogenic substrate has been developed for measuring GUS activity. When compared with the highly used discontinuous method based on 4-MUG as a substrate it was found that the new method is more sensitive and reproducible (%RSD = 4.88). Furthermore, the developed method is less laborious, faster and more economical and should provide an improved alternative for GUS assays and kinetic studies.

Continuous high-frequency monitoring of estuarine water quality as a decision support tool: a Dublin Port case study.

High-frequency, continuous monitoring using in situ sensors offers a comprehensive and improved insight into the temporal and spatial variability of any water body. In this paper, we describe a 7-month exploratory monitoring programme in Dublin Port, demonstrating the value of high-frequency data in enhancing knowledge of processes, informing discrete sampling, and ultimately increasing the efficiency of port and environmental management. Kruskal-Wallis and Mann-Whitney tests were used to show that shipping operating in Dublin Port has a small-medium effect on turbidity readings collected by in situ sensors. Turbidity events are largely related to vessel activity in Dublin Port, caused by re-suspension of sediments by vessel propulsion systems. The magnitudes of such events are strongly related to water level and tidal state at vessel arrival times. Crucially, measurements of Escherichia coli and enterococci contamination from discrete samples taken at key periods related to detected turbidity events were up to nine times higher after vessel arrival than prior to disturbance. Daily in situ turbidity patterns revealed time-dependent water quality "hot spots" during a 24-h period. We demonstrate conclusively that if representative environmental assessment of water quality is to be performed at such sites, sampling times, informed by continous monitoring data, should take into account these daily variations. This work outlines the potential of sensor technologies and continuous monitoring, to act as a decision support tool in both environmental and port management.