Historically the nutrient rich Benguela ecosystem supported large stocks of commercially important fish which sustained the Namibian fishing sector. Recently, non-exploited species i.e. bearded goby (Sufflogobius bibarbatus) and jellyfish (Chrysaora fulgida and Aequorea forskalea) have become more apparent and are described as key-species in this ecosystem. Empirical evidence for understanding the stock abundance and dynamics of S. bibarbatus and jellyfish are still sparse, as research focus has been mainly on commercially important fish. The abundance of these non-exploited species in relation to the environment and commercial species are also not well understood. Lack of methods to effectively assess jellyfish and S. bibarbatus have furthermore limited our knowledge. Acoustics can cover large water volumes and observe many trophic groups and interactions simultaneously hence currently proposed as the most reliable observation tool available to remotely study multiple species that are overlapping and widely distributed in marine ecosystems. For acoustic assessments using echo sounders, the ability to detect, identify and distinguish targets from each other and the echo ability (target strength: TS) of individual targets is pivotal to convert acoustic data from a calibrated system into significant biological measures. The lack of effective acoustic identification (ID) techniques and knowledge about TS of species may limit the application of acoustics. The swimbladder generally contributes more than 90% to the backscattered energy from fish, which makes knowledge of the swimbladder vital for understanding the acoustic properties of a fish. Prior to this study, the presence or absence of a swimbladder within S. bibarbatus has been uncertain. This thesis is an exploratory study addressing 1) the acoustic identification challenge of species in aggregating in mixed assemblages and 2) the acoustic characteristics of the target species. The latter two are of essence to assess the biomass, distributions and ecological interactions of these non-exploited. The multiple frequency data (18, 38, 70, 120 and 200 kHz) and trawl data used in this study were collected on a survey conducted by the RV G.O.Sars during April 2008 in the northern Benguela. Fifteen validated assumed to be ‘single species' trawl and acoustic datasets were selected and used in the application and developing of ID techniques. Traditional acoustic identification techniques (Sᵥ-differencing and relative frequency response r(f)) were adopted and found ineffective as standalones to discriminate the species under study. The overlaps in the Sᵥ differences of the three species complicated separation. A multivariate statistical approach, Linear Discriminant Analysis (LDA) was applied to predict which of the variables s[subscript(A)], S[subscript(A)], Δs[subscript(A)] and r(f) discriminated the three species groups from each other with a higher accuracy. It was found that by combining backscattering strength S[subscript(A)] and r(f) a correct classification accuracy of up to 95% could be obtained. Limitation is that the LDA technique as any classification method is not applicable in “real time” during surveys. A new technique, here within referred to as the Separator Technique, which incorporates the standard techniques, LDA results, a novel r(f) similarity comparison technique and a threshold s[subscript(A)] response technique was established. The effectiveness of the Separator Technique is in the recognition of similarities and stability in frequency response by simple correlation of the observed frequency response at systematic Sᵥ-threshold levels. Accurate acoustic classification depends on good and valid training datasets and there has so far not been a simple way of acoustically detecting if the selected assumed “pure” datasets is contaminated or not. Only available reliable source are the trawl samples. The r(f) similarity comparison method showed that some of the assumed ‘single species' trawls were mixed and that presence of <1% of strong scatterers could mask a weaker scatterer. By evaluating the threshold s[subscript(A)] frequency response, the proportion of thresholded backscattering could be quantified. A frequency which is more appropriate for the acoustic assessment of the respective species in mixed aggregations could also be identified. Further improvements of the Separator Technique are required in terms of the precise Sᵥ-cut levels. The presence of S. bibarbatus' swimbladder was confirmed from two thawed specimens. From further investigations on 26 dissections of sampled S. bibarbatus, the swimbladder was identified as a physoclist (closed swimbladder) with an extensive gas gland, and its morphology was roughly described as prolate spheroid shaped and with about 5ᴼ negatively tilted compared fish vertebra. This means that the strongest echo from a goby will be found when the fish is at about 5ᴼ head down relative to the horizontal. The in situ TS of 8 cm sized S. bibarbatus and the two jellyfish species: C. fulgida [umbrella diameter: 21.7 cm] and A. forskalea [16 cm] at multiple frequencies (18, 38, 70, 120 and 200 kHz) was estimated. At 38 kHz, the TS was -53 dB for S. bibarbatus, -58 dB for A. forskalea and -66 dB for C. fulgida. The single echo detection (SED) approach which is assumed to be a more accurate method for estimating TS than the previously applied methods for jellyfish. The TS results for S. bibarbatus are of similar magnitude to other published TS values of C. fulgida. This suggests that estimates of jellyfish may be overestimated due to inaccuracies in target identification. This thesis established the acoustic characteristics of jellyfish and S. bibarbatus within the northern Benguela which makes it possible to acoustically assess and monitor jellyfish and/or fish. The identification technique though still in early phases of development, can be applied to enhance quality of training datasets (samples) used in classification. This piece of work can reduce variability in biomass estimates that arises from masking or misclassification of echoes.

Electroosmotic flow is widely used as a solution pumping method in numerous microfluidic applications. This type of flow has several advantages over other pumping techniques, such as the fast response time, the ease of control and integration in different microchannel designs. The flow utilizes the scaling of channel dimensions, which enhances the effects of the electrostatic forces to create flow in microchannels under an electrical body force. However, the electrostatic properties of the solution/wall material pairings are unique and must be experimentally measured. As a consequence, accurate knowledge about the electrostatic properties of the solution and wall material pairings is important for the optimal design of microfluidic devices using electroosmotic flow. Moreover, the introduction of new solutions and new channel materials for different applications is common in the microfluidics area. Therefore, any improvement on the experimental techniques used to examine the electrostatic properties of microchannels is beneficial to the research community. In this work, an improvement to the current-monitoring technique for studying the electrokinetic properties of microchannels is achieved by replacing the conventional straight channel design with a new Y-channel design. The errors from both the undesired pressure driven flow and solution electrolysis were addressed and significantly reduced. The new design offers high accuracy in finding the electrokinetic properties of microchannels. The experimental outcome from the new channel design is better compared to the outcomes of the straight channel, which helps in distinguishing the important electroosmotic pumping regions from the current-time plot. Moreover the time effectiveness in performing the experiments with the new channel design is better compared to that for the straight channel design. A modified analysis approach is also presented and validated for finding the electrokinetic properties from the outcomes of the current-monitoring technique, which is called the current-slope method. This approach is validated by comparing its findings with the results of the conventional length method. It was found for most situations that the discrepancy between the two methods, the current-slope and total length method, are within the uncertainty of the experimental measurements, thus validating the new analysis approach. In situations where it is hard to distinguish the start and end of solution replacement from the current-time plot of the current-monitoring technique, the current-slope method is advised. With the new design, different parametric studies of electroosmotic flow in PDMS based microchannels are estimated. At first the zeta potential of biological buffers are studied. Moreover the effect of continuous electroosmotic pumping, the chip substrate structure, and temperature on the average zeta potential of microchannels are examined. It was found that for air plasma treated PDMS microchannels the chip substrate material does not have an effect on the average zeta potential of the microchannels. The following chemical treatments are attempted with the aim of improving the surface and electrostatic properties of PDMS based microchannels: prepolymer additive with acrylic acid, extraction of PDMS, and both heat and plasma induced HEMA (Hydroxyethyl methacrylate) grafting on the surface of PDMS. Extensive characterization is performed with different experimental methods. The stability of the artificial hydrophilic properties of the PDMS microchannels with time was improved with both the extraction and HEMA grafting techniques. On the other hand, there was no evidence of any improvement in the zeta potential of microchannels with the surface treatments.

Electroosmotic flow is widely used as a solution pumping method in numerous microfluidic applications. This type of flow has several advantages over other pumping techniques, such as the fast response time, the ease of control and integration in different microchannel designs. The flow utilizes the scaling of channel dimensions, which enhances the effects of the electrostatic forces to create flow in microchannels under an electrical body force. However, the electrostatic properties of the solution/wall material pairings are unique and must be experimentally measured. As a consequence, accurate knowledge about the electrostatic properties of the solution and wall material pairings is important for the optimal design of microfluidic devices using electroosmotic flow. Moreover, the introduction of new solutions and new channel materials for different applications is common in the microfluidics area. Therefore, any improvement on the experimental techniques used to examine the electrostatic properties of microchannels is beneficial to the research community. In this work, an improvement to the current-monitoring technique for studying the electrokinetic properties of microchannels is achieved by replacing the conventional straight channel design with a new Y-channel design. The errors from both the undesired pressure driven flow and solution electrolysis were addressed and significantly reduced. The new design offers high accuracy in finding the electrokinetic properties of microchannels. The experimental outcome from the new channel design is better compared to the outcomes of the straight channel, which helps in distinguishing the important electroosmotic pumping regions from the current-time plot. Moreover the time effectiveness in performing the experiments with the new channel design is better compared to that for the straight channel design. A modified analysis approach is also presented and validated for finding the electrokinetic properties from the outcomes of the current-monitoring technique, which is called the current-slope method. This approach is validated by comparing its findings with the results of the conventional length method. It was found for most situations that the discrepancy between the two methods, the current-slope and total length method, are within the uncertainty of the experimental measurements, thus validating the new analysis approach. In situations where it is hard to distinguish the start and end of solution replacement from the current-time plot of the current-monitoring technique, the current-slope method is advised. With the new design, different parametric studies of electroosmotic flow in PDMS based microchannels are estimated. At first the zeta potential of biological buffers are studied. Moreover the effect of continuous electroosmotic pumping, the chip substrate structure, and temperature on the average zeta potential of microchannels are examined. It was found that for air plasma treated PDMS microchannels the chip substrate material does not have an effect on the average zeta potential of the microchannels. The following chemical treatments are attempted with the aim of improving the surface and electrostatic properties of PDMS based microchannels: prepolymer additive with acrylic acid, extraction of PDMS, and both heat and plasma induced HEMA (Hydroxyethyl methacrylate) grafting on the surface of PDMS. Extensive characterization is performed with different experimental methods. The stability of the artificial hydrophilic properties of the PDMS microchannels with time was improved with both the extraction and HEMA grafting techniques. On the other hand, there was no evidence of any improvement in the zeta potential of microchannels with the surface treatments.

The methods of analysis with a focused ion beam, commonly termed as nuclear microscopy, include quantitative physical processes like PIXE and RBS. The element concentrations in a sample can be quantitatively mapped with a sub-micron spatial resolution and a sub-ppm sensitivity. Its fully quantitative and non-destructive nature makes it particularly suitable for analysing biological samples. The applications in biomedical research are manifold. The iron overload hypothesis in Parkinson\\\'s disease is investigated by a differential analysis of human substantia nigra. The trace element content is quantified in neuromelanin, in microglia cells, and in extraneuronal environment. A comparison of six Parkinsonian cases with six control cases revealed no significant elevation in iron level bound to neuromelanin. In fact, a decrease in the Fe/S ratio of Parkinsonian neuromelanin was measured, suggesting a modification in its iron binding properties. Drosophila melanogaster, or the fruit fly, is a widely used model organism in neurobiological experiments. The electrolyte elements are quantified in various organs associated with the olfactory signalling, namely the brain, the antenna and its sensilla hairs, the mouth parts, and the compound eye. The determination of spatially resolved element concentrations is useful in preparing the organ specific Ringer\\\'s solution, an artificial lymph that is used in disruptive neurobiological experiments. The role of trace elements in the progression of atherosclerosis is examined in a pilot study. A differential quantification of the element content in an induced murine atherosclerotic lesion reveals elevated S and Ca levels in the artery wall adjacent to the lesion and an increase in iron in the lesion. The 3D quantitative distribution of elements is reconstructed by means of stacking the 2D quantitative maps of consecutive sections of an artery. The feasibility of generating a quantitative elemental rodent brain atlas by Large Area Mapping is investigated by measuring at high beam currents. A whole coronal section of the rat brain was measured in segments in 14 h. Individual quantitative maps of the segments are pieced together to reconstruct a high-definition element distribution map of the whole section with a subcellular spatial resolution. The use of immunohistochemical staining enhanced with single elements helps in determining the cell specific element content. Its concurrent use with Large Area Mapping can give cellular element distribution maps.

The methods of analysis with a focused ion beam, commonly termed as nuclear microscopy, include quantitative physical processes like PIXE and RBS. The element concentrations in a sample can be quantitatively mapped with a sub-micron spatial resolution and a sub-ppm sensitivity. Its fully quantitative and non-destructive nature makes it particularly suitable for analysing biological samples. The applications in biomedical research are manifold. The iron overload hypothesis in Parkinson\\\''s disease is investigated by a differential analysis of human substantia nigra. The trace element content is quantified in neuromelanin, in microglia cells, and in extraneuronal environment. A comparison of six Parkinsonian cases with six control cases revealed no significant elevation in iron level bound to neuromelanin. In fact, a decrease in the Fe/S ratio of Parkinsonian neuromelanin was measured, suggesting a modification in its iron binding properties. Drosophila melanogaster, or the fruit fly, is a widely used model organism in neurobiological experiments. The electrolyte elements are quantified in various organs associated with the olfactory signalling, namely the brain, the antenna and its sensilla hairs, the mouth parts, and the compound eye. The determination of spatially resolved element concentrations is useful in preparing the organ specific Ringer\\\''s solution, an artificial lymph that is used in disruptive neurobiological experiments. The role of trace elements in the progression of atherosclerosis is examined in a pilot study. A differential quantification of the element content in an induced murine atherosclerotic lesion reveals elevated S and Ca levels in the artery wall adjacent to the lesion and an increase in iron in the lesion. The 3D quantitative distribution of elements is reconstructed by means of stacking the 2D quantitative maps of consecutive sections of an artery. The feasibility of generating a quantitative elemental rodent brain atlas by Large Area Mapping is investigated by measuring at high beam currents. A whole coronal section of the rat brain was measured in segments in 14 h. Individual quantitative maps of the segments are pieced together to reconstruct a high-definition element distribution map of the whole section with a subcellular spatial resolution. The use of immunohistochemical staining enhanced with single elements helps in determining the cell specific element content. Its concurrent use with Large Area Mapping can give cellular element distribution maps.

This report presents the development, implementation, and testing of a current monitor system that is specifically developed for testing a neuromuscular electrical stimulation system (NMES). The NMES system, developed by KTH and its academic and industrial partners Karolinska institute and Matrix Muscle Support, incorporates advanced features aimed at preventing cardiovascular diseases. The problem statement revolves around the necessity of developing a system capable of detecting any instances of overcurrent or leakage current in the neuromuscular electrical stimulation system. The purpose of this current monitoring system is to offer real-time monitoring of current levels within the electrical stimulation system. The project’s goal is to design and implement a comprehensive software and hardware solution that allows users to simultaneously monitor voltage levels across multiple channels and detect any abnormalities. The project was executed using a top-down approach. Each subtask is processed separately and finally tested to be verified and approved according to the expectations set. Test-driven development (TDD) methodology was employed to ensure the reliability and accuracy of the software and hardware implementation. The project has produced several significant results, the most important of which include the successful implementation of a real-time monitoring system for the multi-channel NMES system. A dedicated circuit board design has been prepared according to the specified requirements described in the report. The software interface has been designed to provide the user with real-time readings of voltage levels as well as visual identification of normal and abnormal values. The measurements carried out during all the tests gave clear answers to the set question, with the exception of some displacement (offset) which can be investigated more closely in future research. Furthermore, the reference images showed that the system was functioning in accordance with its original intended purpose. / Denna rapport presenterar utvecklingen, implementeringen och testningen av ett strömmätningssystem som är speciellt utvecklat för att testa ett neuromuskulärt elektriskt stimuleringssystem (NMES). NMES-systemet, utvecklat av KTH och dess akademiska och industriella partners Karolinska institutet och Matrix Muscle Support, innehåller avancerade funktioner som syftar till att förebygga hjärt-kärlsjukdomar. Problemformuleringen kretsar kring nödvändigheten av att utveckla ett system som kan detektera fall av överström eller läckström i det neuromuskulära elektriska stimuleringssystemet. Syftet med detta strömmätningssystem är att erbjuda realtidsövervakning av strömnivåer inom det elektriska stimuleringssystemet. Projektets mål är att designa och implementera en omfattande mjukvaru- och hårdvarulösning som tillåter användare att samtidigt övervaka spänningsnivåer över flera kanaler och upptäcka eventuella avvikelser. Projektet genomfördes med en top-down-metod. Varje deluppgift bearbetas separat och testas slutligen för att verifieras och godkännas enligt de förväntningar som satts. Testdriven utvecklingsmetod (TDD) användes för att säkerställa tillförlitligheten och noggrannheten hos implementeringen av mjukvara och hårdvara. Projektet har gett flera betydande resultat, av vilka de viktigaste inkluderar framgångsrik implementering av ett realtidsövervakningssystem för flerkanals NMES-systemet. En dedikerad kretskortsdesign har utarbetats enligt de specificerade kraven som beskrivs i rapporten. Mjukvarugränssnittet har utformats för att ge användaren realtidsavläsningar av spänningsnivåer samt visuell identifiering av normala och onormala värden. De mätningar som genomfördes under samtliga tester gav tydliga svar på frågeställningen, med undantag för viss förskjutning (offset) som kan undersökas närmare i framtida forskning. Vidare visade referensbilderna att systemet fungerade i enlighet med det ursprungliga syftet.