Biosensors for the detection of bacteria

This review will consider the role of biosensors towards the detection of infectious bacteria, although non-infectious ones will be considered where necessary. Recently, there has been a heightened interest in developing rapid and reliable methods of detection. This is especially true for detection of organisms involved in bioterrorism, food poisoning, and clinical problems such as antibiotic resistance. Biosensors can assist in achieving these goals, and sensors using several of the different types of transduction modes are discussed: electrochemical, high frequency (surface acoustic wave), and optical. The paper concludes with a discussion of three areas that may make a great impact in the next few years: integrated (lab-on-a-chip) systems, molecular beacons, and aptamers.     

The elastic properties of trabecular and cortical bone tissues are similar: results from two microscopic measurement techniques

Acoustic microscopy (30-60 microm resolution) and nanoindentation (1-5 microm resolution) are techniques that can be used to evaluate the elastic properties of human bone at a microstructural level. The goals of the current study were (1) to measure and compare the Young's moduli of trabecular and cortical bone tissues from a common human donor, and (2) to compare the Young's moduli of bone tissue measured using acoustic microscopy to those measured using nanoindentation. The Young's modulus of cortical bone in the longitudinal direction was about 40% greater than (p<0.01) the Young's modulus in the transverse direction. The Young's modulus of trabecular bone tissue was slightly higher than the transverse Young's modulus of cortical bone, but substantially lower than the longitudinal Young's modulus of cortical bone. These findings were consistent for both measurement methods and suggest that elasticity of trabecular tissue is within the range of that of cortical bone tissue. The calculation of Young's modulus using nanoindentation assumes that the material is elastically isotropic. The current results, i.e., the average anisotropy ratio (E(L)/E(T)) for cortical bone determined by nanoindentation was similar to that determined by the acoustic microscope, suggest that this assumption does not limit nanoindentation as a technique for measurement of Young's modulus in anisotropic bone.     

Auditory attention--focusing the searchlight on sound

Some fifty years after the first physiological studies of auditory attention, the field is now ripening, with exciting recent insights into the psychophysics, psychology, and neural basis of auditory attention. Current research seeks to unravel the complex interactions of pre-attentive and attentive processing of the acoustic scene, the role of auditory attention in mediating receptive-field plasticity in both auditory spatial and auditory feature processing, the contrasts and parallels between auditory and visual attention pathways and mechanisms, the interplay of bottom-up and top-down attentional mechanisms, the influential role of attention, goals, and expectations in shaping auditory processing, and the orchestration of diverse attentional effects at multiple levels from the cochlea to the cortex.     

Flying high--assessing the use of the aerosphere by bats

Bats feature prominently among organisms that occupy the aerosphereas they extensively use this environment for foraging, but alsofor dispersal, migration, and behavioral interactions. Differentialuse of the aerosphere is an important factor structuring batassemblages, with species exhibiting distinct morphological,physiological, and sensory adaptations to different habitattypes. This necessitates comprehensive sampling methodologiessuch as combined ground-level and canopy-level mist nettingas well as acoustic monitoring to assess the presence, diversity,and activity of different functional groups of species adequately.Recent technological advances in acoustic detection and in methodsof analysis, coupled with the expansion of libraries of echolocationcalls for species identification, now allow for the reliablequantification of species numbers and activity of the scarcelyknown group of aerial insectivorous bats, particularly in species-richtropical assemblages. We provide a brief, exemplary overviewof recent studies on bats conducted in Panamá to demonstratethe necessity of comprehensive sampling methods and applicationof new technologies in order to adequately depict assemblagecomposition and responses of bats to structural changes in habitatsinduced by fragmentation. In addition to acoustic methods, miniaturizationof radio transmitters has provided new insights into the patternsof spatial use of the aerosphere by bats and has identifiedspecies-specific differences in mobility as one of the importanttraits that determines bats’ reactions to anthropogenicalterations of the landscape. Following the goals of the symposiumon aeroecology, we propose new avenues of research for probingthe aerosphere. We discuss how integration of a diverse arrayof remote sensing tools with data on species distribution andspecies traits, such as mobility and edge-sensitivity, mightprovide novel opportunities for the development, and applicationof conservation-oriented monitoring systems.     

Parallel evolutionary forces influence the evolution of male and female songs in a tropical songbird

Given the important role that animal vocalizations play in mate attraction and resource defence, acoustic signals are expected to play a significant role in speciation. Most studies, however, have focused on the acoustic traits of male animals living in the temperate zone. In contrast to temperate environments, in the tropics, it is commonplace for both sexes to produce complex acoustic signals. Therefore, tropical birds offer the opportunity to compare the sexes and provide a more comprehensive understanding of the evolution of animal signals. In this study, we quantified patterns of acoustic variation in Rufous‐and‐white Wrens (Thryophilus rufalbus) from five populations in Central America. We quantified similarities and differences between male and female songs by comparing the role that acoustic adaptation, cultural isolation and neutral genetic divergence have played in shaping acoustic divergence. We found that males and females showed considerable acoustic variation across populations, although females exhibited greater population divergence than males. Redundancy analysis and partial‐redundancy analysis revealed significant relationships between acoustic variation and ecological variables, genetic distance, and geographic distance. Both ambient background noise and geographic distance explained a high proportion of variance for both males and females, suggesting that both acoustic adaptation and cultural isolation influence song. Overall, our results indicate that parallel evolutionary forces act on male and female acoustic signals and highlight the important role that cultural drift and selection play in the evolution of both male and female songs.     

Startle responding and context conditioning. Naloxone pretreatment and stimulus intensity

The possibility that acoustic startle stimuli could support a conditional response (freezing) to contextual stimuli was investigated. Rats were exposed to three acoustic startle stimuli on the first day, and one on the second day. On day 1, 20 rats received naloxone pretreatment and another 20 received saline (placebo) pretreatment. Half of each group received a high-intensity acoustic stimulus, the other half a low-intensity acoustic stimulus. Both the higher stimulus intensity and the naloxone pretreatment led to greater freezing behavior during the 3-minute test period before the single startle stimulus on day 2. These findings support the notion that increased actual or perceived intensity of the acoustic startle stimulus increases conditioning to contextual stimuli as indexed by freezing behavior.     

Assessing the value of acoustic indices to distinguish species and quantify activity: A case study using frogs

1. Soundscapes can provide information about a wide range of habitats and species through the recording of vocalisations over long temporal scales. Because of the large volumes of data collected, computational approaches, such as the application of acoustic indices, are required to extract useful information from long-duration recordings.
2. Acoustic indices summarise various soundscape features into frequency ranges over defined time intervals and can aid in the visual exploration, detection, and analysis of species vocalisation patterns. Here, we examine the performance of combinations of three acoustic indices commonly used in visual exploration, the acoustic complexity index, the temporal entropy spectrum index, and the event spectrum index, and assess their ability to distinguish species and describe acoustic features commonly used to detect species and analyse activity. Our case study focuses on three frog species with distinct call structures from Bickerton Island, Northern Territory, Australia. Call structure was categorised based on the number of pulses and harmonics.
3. We summarised acoustic activity by calculating acoustic indices in 256 equal-sized bins over the entire the frequency spectrum, for 30-s intervals, and found that acoustic index values could be used to distinguish species and describe acoustic features. The acoustic complexity index was the most effective index for distinguishing species. To describe acoustic features, we examined correlations between acoustic index values and summarised acoustic features, including call rate, total duration, loudness and signal-to-noise ratio. In single-pulsed species with no harmonics, we found spectral index values were significantly and sometimes strongly correlated with acoustic features. In comparison, species with harmonics were found to be weakly and less frequently correlated with acoustic features even if sampled calls were loud and have high signal-to-noise ratio. We suggest that acoustic indices have the potential to describe acoustic features in single-pulsed species but are limited in those with harmonics.
4. We conclude that acoustic indices can be a useful tool to distinguish some anuran species and to broadly understand specific acoustic features used to analyse calling activity over long periods of time.
5. Further research is required to better understand the relationships between acoustic indices and acoustic features to determine the general utility of indices to detect and distinguish audible species and to identify other acoustic features of various taxa.

     

Theory of the acoustic instability and behavior of the phase velocity of acoustic waves in a weakly ionized plasma

The amplification of acoustic waves due to the transfer of thermal energy from electrons to the neutral component of a glow discharge plasma is studied theoretically. It is shown that, in order for acoustic instability (sound amplification) to occur, the amount of energy transferred should exceed the threshold energy, which depends on the plasma parameters and the acoustic wave frequency. The energy balance equation for an electron gas in the positive column of a glow discharge is analyzed for conditions typical of experiments in which acoustic wave amplification has been observed. Based on this analysis, one can affirm that, first, the energy transferred to neutral gas in elastic electron-atom collisions is substantially lower than the threshold energy for acoustic wave amplification and, second, that the energy transferred from electrons to neutral gas in inelastic collisions is much higher than that transferred in elastic collisions and thus may exceed the threshold energy. It is also shown that, for amplification to occur, there should exist some heat dissipation mechanism more efficient than gas heat conduction. It is suggested that this may be convective radial mixing within a positive column due to acoustic streaming in the field of an acoustic wave. The features of the phase velocity of sound waves in the presence of acoustic instability are investigated.     

Modelling the effects of chorus species composition and caller density on acoustic masking interference in multispecies choruses of crickets and katydids

Natural multispecies acoustic choruses such as the dusk chorus of a tropical rain forest consist of simultaneously signalling individuals of different species whose calls travel through a common shared medium before reaching their ‘intended’ receivers. This causes masking interference between signals and impedes signal detection, recognition and localization. The levels of acoustic overlap depend on a number of factors, including call structure, intensity, habitat-dependent signal attenuation and receiver tuning. In addition, acoustic overlaps should also depend on caller density and the species composition of choruses, including relative and absolute abundance of the different calling species. In this study, we used simulations to examine the effects of chorus species relative abundance and caller density on the levels of effective heterospecific acoustic overlap in multispecies choruses composed of the calls of five species of crickets and katydids that share the understorey of a rain forest in southern India. We found that on average species-even choruses resulted in higher levels of effective heterospecific acoustic overlap than choruses with strong dominance structures. This effect was found consistently across dominance levels ranging from 0.4 to 0.8 for larger choruses of forty individuals. For smaller choruses of twenty individuals, the effect was seen consistently for dominance levels of 0.6 and 0.8 but not 0.4. Effective acoustic overlap (EAO) increased with caller density but the manner and extent of increase depended both on the species' call structure and the acoustic context provided by the composition scenario. The Phaloria sp. experienced very low levels of EAO and was highly buffered to changes in acoustic context whereas other species experienced high EAO across contexts or were poorly buffered. These differences were not simply predictable from call structures. These simulation-based findings may have important implications for acoustic biodiversity monitoring and for the study of acoustic masking interference in natural environments.     

Using untapped telemetry data to explore the winter biology of freshwater fish

Winter is a challenging period for aquatic research—weather is uncomfortable, ice is hazardous, equipment fails, and daylength is short. Consequently, until recently relatively little research on freshwater fishes has included winter. Telemetry methods for tracking fish and observing movement behavior are an obvious solution to working in harsh conditions because much of the data can be collected remotely, and passive methods collect data year-round without winter maintenance. Yet, many telemetry studies do not collect data during winter or, if they do, only report data from the ice-free seasons while the remaining data are unused. Here, we briefly summarize the advantages and limitations of using telemetry methods in winter, including acoustic and radio telemetry and passive integrated transponder technology, then review the range of questions related to fish ecology, behavior, bioenergetics, and habitat use that can be addressed in winter using telemetry. Our goals are to highlight the untapped potential of winter fish biology and to motivate scientists to revisit their four-season telemetry data and incorporate objectives specific to winter biology in future study plans.

     

Do We Practice What We Preach? Goal Setting for Ecological Restoration

Over the last decade, several research and opinion pieces have challenged the tenets of restoration ecology but a lack of centralized data has impeded assessment of how scientific developments relate to on‐the‐ground restoration. In response, the Society for Ecological Restoration (SER) launched the Global Restoration Network (GRN) to catalog worldwide restoration efforts. We reviewed over 200 GRN projects to identify the goals governing restoration and the frequency with which they are measured. We used the SER Primer on Ecological Restoration to frame our analysis, categorizing goals by SER's attributes of restored ecosystems. We developed additional attributes to characterize goals not encompassed by the SER‐defined attributes. Nearly all projects included goals related to ecosystem form, namely similarity to reference conditions and the presence of indigenous species, and these goals were frequently measured. Most projects included goals related to ecosystem function, and many highlighted interactions between abiotic and biotic factors by either modifying abiotic conditions to support focal species or manipulating species to achieve desired ecosystem functions. Few projects had goals related to ecosystem stability, whereas the majority of projects had goals related to social values. Although less frequently measured, social goals were described as important for long‐term project success. In conclusion, science and practice frequently aligned on goals related to ecosystem composition and function, but scientific guidelines on resilience and self‐sustainability appear insufficient to guide practice. In contrast, the common inclusion of goals for human well‐being indicates that, if intended to advise practice, restoration guidelines should give direction on social goals.     

Behaviour of a Premixed Flame Subjected to Acoustic Oscillations

In this paper, a one dimensional premixed laminar methane flame is subjected to acoustic oscillations and studied. The purpose of this analysis is to investigate the effects of acoustic perturbations on the reaction rates of different species, with a view to their respective contribution to thermoacoustic instabilities. Acoustically transparent non reflecting boundary conditions are employed. The flame response has been studied with acoustic waves of different frequencies and amplitudes. The integral values of the reaction rates, the burning velocities and the heat release of the acoustically perturbed flame are compared with the unperturbed case. We found that the flame''s sensitivity to acoustic perturbations is greatest when the wavelength is comparable to the flame thickness. Even in this case, the perturbations are stable with time. We conclude that acoustic fields acting on the chemistry do not contribute significantly to the emergence of large amplitude pressure oscillations.     

Sounds Modulate Males’ Aggressiveness in a Cichlid Fish

Acoustic signals are produced in many fish species during agonistic or courtship interactions. A way to test the biological role of these sounds is the use of acoustic playback experiments. However, sounds are usually associated with visual displays and playback experiments performed in fish so far, often failed to match acoustic and visual stimuli. To avoid this mismatch issue, we experimentally separated or coupled visual and acoustic channels to test the role of sounds produced during male–male aggressive interactions in a cichlid fish, Metriaclima zebra. Results show that aggressive behaviour is based on visual stimuli and that acoustic signals alone never trigger aggression. Furthermore, the association between visual and acoustic channels lowers the level of aggressiveness found when fish can only interact visually. This suggests that acoustic signals used during a dispute may complement visual displays to modulate males’ behaviour by reducing their aggressiveness and the risk of escalated fights.     

Nonlinear ion acoustic waves in a quantum degenerate warm plasma with dust grains

A study is made of the propagation of ion acoustic waves in a collisionless unmagnetized dusty plasma containing degenerate ion and electron gases at nonzero temperatures. In linear theory, a dispersion relation for isothermal ion acoustic waves is derived and an exact expression for the linear ion acoustic velocity is obtained. The dependence of the linear ion acoustic velocity on the dust density in a plasma is calculated. An analysis of the dispersion relation reveals parameter ranges in which the problem has soliton solutions. In nonlinear theory, an exact solution to the basic equations is found and examined. The analysis is carried out by Bernoulli’s pseudopotential method. The ranges of the phase velocities of periodic ion acoustic waves and the velocities of solitons are determined. It is shown that these ranges do not overlap and that the soliton velocity cannot be lower than the linear ion acoustic velocity. The profiles of the physical quantities in a periodic wave and in a soliton are evaluated, as well as the dependence of the critical velocity of solitons on the dust density in a plasma.     

Improvement in separation characteristics of protein precipitates by acoustic conditioning

The effect of acoustic conditioning on the particle size distribution of isoelectric and calcium-ion-precipitated soya protein has been examined in low-residence-time chambers. In a previous study a beat frequency of 5 Hz obtained using a dual-source system of opposing vibrators was determined as giving optimal improvement in particle-settling characteristics for isoelectric soya protein precipitate. In this study the effect of amplitude of vibration, a measure of acoustic power input, and residence time of acoustic conditioning has been examined.Acoustic power input changed the flow pattern in the conditioning chamber from laminar streamline flow to a well-mixed, turbulent pattern. Such a mixing effect promoted the rapid aggregation of fine particles, a process that was modeled on the basis of orthokinetically controlled collisions. The rate of removal of fine particles due to acoustic conditioning was shown to be proportional to a mixing effect that was releated to the acoustic power dissipated per unit volume.The consequences of fine-particle aggregation on the centrifugal recovery of the precipitate are discussed.     

GABA介导杏仁外侧核对皮层A Ⅰ区神经元声反应的抑制:在体微电泳研究

在SD大鼠上应用多顺利完成微电极方法,观察微电泳CABA及其受体的拮抗剂或激动剂对杏仁外侧核（LA）抑制皮层AⅠ神经元声反应效应的影响。结果显示,电泳GABA能抑制皮层AⅠ区神经元的电活动,电泳GABAA受体拮抗剂bicuculline（BIC）则能易化其反应;电刺激LA能抑制皮层AⅠ区听神经元声反应,电泳GABA产生类拟于刺激LA的抑制效应;LA对皮层AⅠ区神经的抑制效应能被BIC所翻转,而不能被什氨酸受体拮抗剂strychnine所翻转,电泳GABAB型受体例激动剂baclofen对神经元声反应无影响。上术结果表明,GABA可能是介民LA抑制皮层AⅠ区神经元声反应的最终递质,并且是通过GABAA受体作用的。     

Acoustic activity across a seabird colony reflects patterns of within-colony flight rather than nest density

Passive acoustic monitoring is increasingly being used as a cost-effective way to study wildlife populations, especially those that are difficult to census using conventional methods. Burrow-nesting seabirds are among the most threatened birds globally, but they are also one of the most challenging taxa to census, making them prime candidates for research into such automated monitoring platforms. Passive acoustic monitoring has the potential to determine presence/absence or quantify burrow-nesting populations, but its effectiveness remains unclear. We compared passive acoustic monitoring, tape-playbacks and GPS tracking data to investigate the ability of passive acoustic monitoring to capture unbiased estimates of within-colony variation in nest density for the Manx Shearwater Puffinus puffinus. Variation in acoustic activity across 12 study plots on an island colony was examined in relation to burrow density and environmental factors across 2 years. As predicted fewer calls were recorded when wind speed was high, and on moon-lit nights, but there was no correlation between acoustic activity and the density of breeding birds within the plots as determined by tape-playback surveys. Instead, acoustic indices correlated positively with spatial variation in the in-colony flight activity of breeding individuals detected by GPS. Although passive acoustic monitoring has enormous potential in avian conservation, our results highlight the importance of understanding behaviour when using passive acoustic monitoring to estimate density and distribution.     

Selective Attention Modulates Human Auditory Brainstem Responses: Relative Contributions of Frequency and Spatial Cues

Selective attention is the mechanism that allows focusing one’s attention on a particular stimulus while filtering out a range of other stimuli, for instance, on a single conversation in a noisy room. Attending to one sound source rather than another changes activity in the human auditory cortex, but it is unclear whether attention to different acoustic features, such as voice pitch and speaker location, modulates subcortical activity. Studies using a dichotic listening paradigm indicated that auditory brainstem processing may be modulated by the direction of attention. We investigated whether endogenous selective attention to one of two speech signals affects amplitude and phase locking in auditory brainstem responses when the signals were either discriminable by frequency content alone, or by frequency content and spatial location. Frequency-following responses to the speech sounds were significantly modulated in both conditions. The modulation was specific to the task-relevant frequency band. The effect was stronger when both frequency and spatial information were available. Patterns of response were variable between participants, and were correlated with psychophysical discriminability of the stimuli, suggesting that the modulation was biologically relevant. Our results demonstrate that auditory brainstem responses are susceptible to efferent modulation related to behavioral goals. Furthermore they suggest that mechanisms of selective attention actively shape activity at early subcortical processing stages according to task relevance and based on frequency and spatial cues.     

An Analytically Solvable Model for Rapid Evolution of Modular Structure

Biological systems often display modularity, in the sense that they can be decomposed into nearly independent subsystems. Recent studies have suggested that modular structure can spontaneously emerge if goals (environments) change over time, such that each new goal shares the same set of sub-problems with previous goals. Such modularly varying goals can also dramatically speed up evolution, relative to evolution under a constant goal. These studies were based on simulations of model systems, such as logic circuits and RNA structure, which are generally not easy to treat analytically. We present, here, a simple model for evolution under modularly varying goals that can be solved analytically. This model helps to understand some of the fundamental mechanisms that lead to rapid emergence of modular structure under modularly varying goals. In particular, the model suggests a mechanism for the dramatic speedup in evolution observed under such temporally varying goals.     

Effectiveness of acoustic lures for increasing tropical forest understory bat captures

Bats are the most diverse mammalian order second to rodents, with 1400+ species globally. In the tropics, it is possible to find more than 60 bat species at a single site. However, monitoring bats is challenging due to their small size, ability to fly, cryptic nature, and nocturnal activity. Recently, bioacoustic techniques have been incorporated into survey methods, either through passive acoustic monitoring or acoustic bat lures. Lures have been developed on the premise that broadcasting acoustic stimuli increases the number of captures in harp traps or mist nets. However, this is a relatively new, niche method. This study tested the efficacy of two commonly used acoustic bat lure devices, broadcasting two different acoustic stimuli, to increase forest understory bat captures in the tropics. This is the first time an acoustic bat lure has been systematically tested in a tropical rainforest, and the first study to compare two lure devices (Sussex AutoBat and Apodemus BatLure). Using a paired experimental design, two synthesized acoustic stimuli were broadcasted, a feeding call and a social call, to understand the importance of the call type used on capture rates and genus‐specific responses. Using an acoustic lure significantly increased capture rates, while the type of device did not impact capture rates. The two acoustic stimuli had an almost even distribution of captures, suggesting that the type of call may be less important than previously thought. Results indicate a possible deterrent effect on Rhinolophous sp., while being particularly effective for attracting bats in the genera Murina and Kerivoula. This study highlights the effectiveness of lures, however, also indicates that lure effects can vary across genera. Therefore, lures may bias survey results by altering the species composition of bats caught. Future research should focus on a single species or genus, using synthesized calls of conspecifics, to fully understand the effect of lures.