A quantification of goldfish behavior by an image processing system

Quantitative comparison of 2D and 3D monitoring dimensions in fish behavior analysis

To improve the accuracy and efficiency of fish behavior assessment, this paper focuses on quantitatively exploring the variations and relationships between different monitoring dimensions. A systematic comparison was conducted between 3D and 2D behavioral factors using an infrared tracing system, during both day and night. Significant differences in swimming distance were observed among the different monitoring methods, as determined by two-way ANOVA and Tukey's test. A correction was applied to account for the disparities observed in 2D swimming distance, ensuring accurate measurements. These findings present a cost-effective and efficient approach for obtaining precise 3D distance data. Additionally, a kinematic factor called the "number of U-turns" was proposed to provide a more intuitive characterization of directional changes in fish swimming. Significant differences were observed between 2D and 3D data, with higher percentages of false U-turn counts and missing U-turn counts compared to correct counts in the 2D view. These findings suggest that reducing the monitoring dimension may impact the accurate estimation of swimming motion, potentially resulting in inaccurate outcomes. Finally, the statistical analyses of the non-linear properties of fractal dimension revealed significant differences among the various monitoring methods. This conclusion has practical implications for biologists and physicists, enabling them to improve the accuracy of behavioral phenotyping for organisms exhibiting 3D motion.

A latest progress in the study of fish behavior: cross-generational effects of behavior under pollution pressure and new technologies for behavior monitoring

With the development of agriculture and industry, an increasing number of pollutants are being discharged into the aquatic environment. These pollutants can harm aquatic life. The behavioral characteristics of animals are an external manifestation of their internal mechanisms. Changes in behavior reflect damage and changes in the internal mechanisms. Environmental pollution may lead to behavioral changes not only in the parental generation but also in the offspring that has not been exposed to the pollutants. That is, the intrinsic mechanism that leads to behavioral changes is inheritable. Fish are representative species of aquatic organisms and are commonly used in various research studies. The behavior of fish has also received extensive attention, and the monitoring technology for fish behavior has developed rapidly. This article summarizes the development process of behavior monitoring technology and introduces some of the latest technologies for studying fish behavior. This article also summarizes the intergenerational effects of pollutants on fish behavior, as well as the potential intrinsic and genetic mechanisms that may lead to behavioral changes. This article provides a reference for future relevant neurobehavioral studies.

Aquatic Toxic Analysis by Monitoring Fish Behavior Using Computer Vision: A Recent Progress

Video tracking based biological early warning system achieved a great progress with advanced computer vision and machine learning methods. Ability of video tracking of multiple biological organisms has been largely improved in recent years. Video based behavioral monitoring has become a common tool for acquiring quantified behavioral data for aquatic risk assessment. Investigation of behavioral responses under chemical and environmental stress has been boosted by rapidly developed machine learning and artificial intelligence. In this paper, we introduce the fundamental of video tracking and present the pioneer works in precise tracking of a group of individuals in 2D and 3D space. Technical and practical issues suffered in video tracking are explained. Subsequently, the toxic analysis based on fish behavioral data is summarized. Frequently used computational methods and machine learning are explained with their applications in aquatic toxicity detection and abnormal pattern analysis. Finally, advantages of recent developed deep learning approach in toxic prediction are presented.

Wall following in Xenopus laevis is barrier-driven

The tendency of animals to follow boundaries within their environment can serve as a strategy for spatial learning or defensive behaviour. We examined whether Xenopus laevis tadpoles and froglets employ such a strategy by characterizing their swimming pattern in a square tank with shallow water. Trajectories obtained from video recordings were analysed for proximity to the nearest wall. With the exception of young larvae, the vast majority of animals (both tadpoles and froglets) spent a disproportionately large amount of time near the wall. The total distance covered was not a confounding factor, but animals were stronger wall followers in smaller tanks. Wall following was also not influenced by whether the surrounding walls of the tank were black or white, illuminated by infrared light, or by the presence or absence of tentacles. When given a choice in a convex tank to swim straight and leave the wall or turn to follow the wall, the animals consistently left the wall, indicating that wall following in X. laevis is barrier-driven. This implies that wall following behaviour in Xenopus derives from constraints imposed by the environment (or the experimenter) and is unlikely a strategy for spatial learning or safety seeking.

Analysis of zebrafish (Danio rerio) behavior in response to bacterial infection using a self-organizing map

BACKGROUND

Animal behavioral responses have been recently established as a suitable tool for detecting contaminants in the environment for risk assessment in situ. In this study, we observed movement behavior of zebrafish (Danio rerio) before and after infection with Edwardsiella tarda CK41 for 3 days until death.

METHODS

Infection status of zebrafish was confirmed through PCR and colonization assay as time progressed and lesion development in the tails of zebrafish was also examined. Movement behaviors in response to bacterial infection were patterned by self-organizing map (SOM) based on movement parameters, including speed (mm/s), acceleration (mm/s (2) ), stop duration (t), stop number (n), locomotory rate (mm/s), turning rate (rad/s), and meander (rad/mm).

RESULTS

According to SOM result, clusters were identified firstly according to time and secondly according to infection. Two movement patterns were observed in the early period of infection: one group with minimum turning rate and meander (i.e., stiff movement) and the other group with maximum strop number. Late infection was characterized by long stop duration.

CONCLUSION

SOM was suitable for extracting complex behavioral data and thus can serve as a referencing system for diagnosing disease development in order to reveal the mechanism of the infection process.

A Smart Wirelessly Powered Homecage for Long-Term High-Throughput Behavioral Experiments

A wirelessly powered homecage system, called the EnerCage-HC, that is equipped with multicoil wireless power transfer, closed-loop power control, optical behavioral tracking, and a graphic user interface is presented for longitudinal electrophysiology and behavioral neuroscience experiments. The EnerCage-HC system can wirelessly power a mobile unit attached to a small animal subject and also track its behavior in real-time as it is housed inside a standard homecage. The EnerCage-HC system is equipped with one central and four overlapping slanted wire-wound coils with optimal geometries to form three- and four-coil power transmission links while operating at 13.56 MHz. Utilizing multicoil links increases the power transfer efficiency (PTE) compared with conventional two-coil links and also reduces the number of power amplifiers to only one, which significantly reduces the system complexity, cost, and heat dissipation. A Microsoft Kinect installed 90 cm above the homecage localizes the animal position and orientation with 1.6-cm accuracy. Moreover, a power management ASIC, including a high efficiency active rectifier and automatic coil resonance tuning, was fabricated in a 0.35-μm 4M2P standard CMOS process for the mobile unit. The EnerCage-HC achieves a max/min PTE of 36.3%/16.1% at the nominal height of 7 cm. In vivo experiments were conducted on freely behaving rats by continuously delivering 24 mW to the mobile unit for >7 h inside a standard homecage.

Biological early warning system based on the responses of aquatic organisms to disturbances: a review

Aquatic ecosystems are subject to a number of anthropogenic disturbances, including environmental toxicants. The efficient monitoring of water resources is fundamental for effective management of water quality and aquatic ecosystems. Spot sampling and continuous water quality monitoring based on physicochemical factors are conducted to assess water quality. However, not all contaminants or synergistic and antagonistic toxic effects can be determined by solely analyzing the physicochemical factors. Thus, various biotests have been developed using long-term and automatic observation studies based on the ability of the aquatic organisms to continuously sense a wide range of pollutants. In addition, a biological early warning system (BEWS) has been developed based on the response behaviors of organisms to continuously detect a wide range of pollutants for effective water quality monitoring and management. However, large amounts of data exhibiting non-linearity and individual behavioral variation are continuously accumulated over long-term and continuous behavioral monitoring studies. Thus, appropriate mathematical and computational data analyses are necessary to manage and interpret such large datasets. Here, we review the development and application of BEWS by using various groups of organisms and the computational methods used to process the behavioral monitoring data.

A molecular mechanism of optic nerve regeneration in fish: the retinoid signaling pathway

The fish optic nerve regeneration process takes more than 100 days after axotomy and comprises four stages: neurite sprouting (1-4 days), axonal elongation (5-30 days), synaptic refinement (35-80 days) and functional recovery (100-120 days). We screened genes specifically upregulated in each stage from axotomized fish retina. The mRNAs for heat shock protein 70 and insulin-like growth factor-1 rapidly increased in the retinal ganglion cells soon after axotomy and function as cell-survival factors. Purpurin mRNA rapidly and transiently increased in the photoreceptors and purpurin protein diffusely increased in all nuclear layers at 1-4 days after injury. The purpurin gene has an active retinol-binding site and a signal peptide. Purpurin with retinol functions as a sprouting factor for thin neurites. This neurite-sprouting effect was closely mimicked by retinoic acid and blocked by its inhibitor. We propose that purpurin works as a retinol transporter to supply retinoic acid to damaged RGCs which in turn activates target genes. We also searched for genes involved in the second stage of regeneration. The mRNA of retinoid-signaling molecules increased in retinal ganglion cells at 7-14 days after injury and tissue transglutaminase and neuronal nitric oxide synthase mRNAs, RA-target genes, increased in retinal ganglion cells at 10-30 days after injury. They function as factors for the outgrowth of thick, long neurites. Here we present a retinoid-signaling hypothesis to explain molecular events during the early stages of optic nerve regeneration in fish.

Upregulation of anti-apoptotic factors in upper motor neurons after spinal cord injury in adult zebrafish

Unlike mammals, fish motor function can recover within 6-8weeks after spinal cord injury (SCI). The motor function of zebrafish is regulated by dual control; the upper motor neurons of the brainstem and motor neurons of the spinal cord. In this study, we aimed to investigate the framework behind the regeneration of upper motor neurons in adult zebrafish after SCI. In particular, we investigated the cell survival of axotomized upper motor neurons and its molecular machinery in zebrafish brain. As representative nuclei of upper motor neurons, we retrogradely labeled neurons in the nucleus of medial longitudinal fasciculus (NMLF) and the intermediate reticular formation (IMRF) using a tracer injected into the lesion site of the spinal cord. Four to eight neurons in each thin sections of the area of NMLF and IMRF were successfully traced at least 1-15days after SCI. TUNEL staining and BrdU labeling assay revealed that there was no apoptosis or cell proliferation in the axotomized neurons of the brainstem at various time points after SCI. In contrast, axotomized neurons labeled with a neurotracer showed increased expression of anti-apoptotic factors, such as Bcl-2 and phospho-Akt (p-Akt), at 1-6days after SCI. Such a rapid increase of Bcl-2 and p-Akt protein levels after SCI was quantitatively confirmed by western blot analysis. These data strongly indicate that upper motor neurons in the NMLF and IMRF can survive and regrow their axons into the spinal cord through the rapid activation of anti-apoptotic molecules after SCI. The regrowing axons from upper motor neurons reached the lesion site at 10-15days and then crossed at 4-6weeks after SCI. These long-distance descending axons from originally axotomized neurons have a major role in restoration of motor function after SCI.

An infrared range camera-based approach for three-dimensional locomotion tracking and pose reconstruction in a rodent

We herein introduce an automated three-dimensional (3D) locomotion tracking and pose reconstruction system for rodents with superior robustness, rapidity, reliability, resolution, simplicity, and cost. An off-the-shelf composite infrared (IR) range camera was adopted to grab high-resolution depth images (640×480×2048 pixels at 20Hz) in our system for automated behavior analysis. For the inherent 3D structure of the depth images, we developed a compact algorithm to reconstruct the locomotion and body behavior with superior temporal and solid spatial resolution. Since the range camera operates in the IR spectrum, interference from the visible light spectrum did not affect the tracking performance. The accuracy of our system was 98.1±3.2%. We also validated the system, which yielded strong correlation with automated and manual tracking. Meanwhile, the system replicates a detailed dynamic rat model in virtual space, which demonstrates the movements of the extremities of the body and locomotion in detail on varied terrain.

Changes of phospho-growth-associated protein 43 (phospho-GAP43) in the zebrafish retina after optic nerve injury: a long-term observation

The major model animal of optic nerve regeneration in fish is goldfish. A closely related zebrafish is the most popular model system for genetic and developmental studies of vertebrate central nervous system. A few challenging works of optic nerve regeneration have been done with zebrafish. However, knowledge concerning the long term of optic nerve regeneration apparently lacks in zebrafish. In the present study, therefore, we followed changes of zebrafish behavior and phosphorylated form of growth-associated protein 43 (phospho-GAP43) expression in the zebrafish retina over 100 days after optic nerve transection. Optomotor response was fast recovered by 20-25 days after axotomy whereas chasing behavior (a schooling behavior) was slowly recovered by 80-100 days after axotomy. The temporal pattern of phospho-GAP43 expression showed a biphasic increase, a short-peak (12 folds) at 1-2 weeks and a long-plateau (4 folds) at 1-2 months after axotomy. The recovery of optomotor response well correlated with projection of growing axons to the tectum, whereas the recovery of chasing behavior well correlated with synaptic refinement of retinotectal topography. The present data strongly suggest that phospho-GAP43 plays an active role in both the early and late stages of optic nerve regeneration in fish.

Comparing the EthoVision 2.3 system and a new computerized multitracking prototype system to measure the swimming behavior in fry fish

Coming from the framework of unmarked fry tracking, we compared the capacities, advantages, and disadvantages of two recent video tracking systems: EthoVision 2.3 and a new prototype of multitracking. The EthoVision system has proved to be impressive for tracking a fry using the detection by gray scaling. Detection by subtraction has given less accurate results. Our video multitracking system is able to detect and track more than 100 unmarked fish by gray scaling technique. It permits an analysis at the group level as well as at the individual level. The multitracking program is able to attribute a number to each fish and to follow each one for the whole duration of the track. Our system permits the analysis of the movement of each individual, even if the trajectories of two fish cross each other. This is possible thanks to t hetheoretical estimation of th e trajectory of each fish, which can becompared with the real trajectory (analysis with feedback). However, the period of the track is limited for our system (about 1 min), whereas EthoVision is able to track for numerous hours. In spite of these limitations, these two systems allow an almost continuous automatic sampling of the movement behaviors during the track.

A video-based movement analysis system to quantify behavioral stress responses of fish

Behavioral alterations can be measured as endpoints for sublethal toxicity, and serve as a tool for environmental risk assessment and analysis of toxicological impact. Numerous technical and biological factors have made sublethal effects on fish behavior difficult to quantify. In order to investigate stress- and contaminant-induced behavioral alterations, a video analysis system was designed by our laboratory. With this system up to 12 fish may be individually housed in 20 L exposure arenas and automatically videotaped at multiple and discrete intervals during an experimental period. Analog video data can then digitized, converted into x,y coordinates, and finally transformed into relevant behavioral endpoints using software designed for tracking fish movement combined with specific algorithms. These endpoints include velocity, total distance traveled, angular change, percent movement, space utilization, and fractal dimension (path complexity). Data from fish exposed to a reference toxicant, MS222, and simulation experiments, are presented to exemplify alterations in fish behavior associated with exposure, and accuracy and precision, respectively. The system provides flexibility to analyze any observed movement behavior, is remotely controlled, and can be transportable. These movement analyses can be used to identify characteristic behavioral responses to a variety of environmentally-relevant stressors, and assist in risk assessment and the development of more sensitive lowest observable effect level and no observable effect level for sentinel species.

A computer image processing system for quantification of zebrafish behavior

The tropical zebrafish (Danio rerio) has frequently been used for investigating developmental biology. Here, we developed a computer image processing system for quantifying zebrafish behavior. We could acquire an image of zebrafish freely moving in an aquarium using a CCD camera through a graphic I/O board. To acquire the image of moving zebrafish in real time, we required high spatial (256 x 256 pixels) and temporal (10 frames/s) resolution. Such a high speed of data analysis was accomplished using a skipping search method. By using a small aquarium, trackings of newborn zebrafish could be traced. The velocity of adult zebrafish (7.2 cm/s) was far faster than that of newborn zebrafish (1.8 cm/s). Furthermore, by separation of occluded images of two fish, we could acquire images of the two zebrafish. They behaved as in a school in which one fish chased the other. The chasing was defined by the distance, angle and approach of the two fishes. The chasing ratio of pairs of zebrafish was 37%, whereas those of pairs of different fish were significantly reduced to less than 20%. The present image processing system is a very useful tool for quantitatively scoring the schooling behavior of multiple fish.

Dynamical analysis reveals individuality of locomotion in goldfish

Goldfish swimming was analysed quantitatively to determine if it exhibits distinctive individual spatio-temporal patterns. Due to the inherent variability in fish locomotion, this hypothesis was tested using five nonlinear measures, complemented by mean velocity. A library was constructed of 75 trajectories, each of 5 min duration, acquired from five fish swimming in a constant and relatively homogeneous environment. Three nonlinear measures, the `characteristic fractal dimension' and `Richardson dimension',both quantifying the degree to which a trajectory departs from a straight line, and `relative dispersion', characterizing the variance as a function of the duration, have coefficients of variation less than 7%, in contrast to mean velocity (30%). A discriminant analysis, or classification system, based on all six measures revealed that trajectories are indeed highly individualistic,with the probability that any two trajectories generated from different fish are equivalent being less than 1%. That is, the combination of these measures allows a given trajectory to be assigned to its source with a high degree of confidence. The Richardson dimension and the `Hurst exponent', which quantifies persistence, were the most effective measures.

Axonal Regeneration of Fish Optic Nerve after Injury

Since Sperry's work in the 1950s, it has been known that the central nervous system (CNS) neurons of lower vertebrates such as fish and amphibians can regenerate after axotomy, whereas the CNS neurons of mammals become apoptotic after axotomy. The goldfish optic nerve (ON) is one of the most studied animal models of CNS regeneration. Morphological changes in the goldfish retina and tectum after ON transection were first researched in the 1970s-1980s. Many biochemical studies of neurite outgrowth-promoting substances were then carried out in the 1980s-1990s. Many factors have been reported to be active substances that show increased levels during fish ON regeneration, as shown by using various protein chemistry techniques. However, there are very few molecular cloning techniques for studying ON regeneration after injury. In this review article, we summarize the neurite outgrowth-promoting factors reported by other researchers and describe our strategies for searching for ON regenerating molecules using a differential hybridization technique in the goldfish visual system. The process of goldfish ON regeneration after injury is very long. It takes about half a year from the start of axonal regrowth to complete restoration of vision. The process has been classified into three stages: early, middle and late. We screened for genes with increased expression during regeneration using axotomized goldfish retinal and tectal cDNA libraries and obtained stage-specific cDNA clones that were upregulated in the retina and tectum. We further discuss functional roles of these molecules in the regeneration processes of goldfish ON.

Neurochemical and behavioural changes in zebrafish Danio rerio after systemic administration of 6-hydroxydopamine and 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine

Dopaminergic deficiency in the brain of zebrafish was produced by systemic administration of two catecholaminergic neurotoxins, 6-hydroxydopamine (6-OHDA) and 1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine (MPTP), and the neurochemical and behavioural changes were characterized. The levels of dopamine and noradrenaline decreased significantly after the injection of MPTP and 6-OHDA. Corresponding to these changes, fish exhibited characteristic changes in locomotor behaviour, i.e. the total distance moved and velocity decreased after both neurotoxins. Tyrosine hydroxylase and caspase 3 protein levels were not altered after MPTP or 6-OHDA injections, as studied by immunohistochemistry and western blotting. The catecholaminergic cell clusters suggested to correspond to the mammalian nigrostriatal cell group displayed normal tyrosine hydroxylase immunoreactivity after the toxin treatment and did not show signs of DNA fragmentation that would indicate activation of cascades that lead to cell death. The results show that single systemic injections of MPTP and 6-OHDA induce both biochemical and behavioural changes in zebrafish, albeit failing to produce any significant morphological alteration in catecholaminergic cell clusters at the tested doses. This approach may be used for the screening of chemicals affecting the dopaminergic system. The model may be especially useful for evaluation of the role of novel genes in neurotoxicity, as a large number of zebrafish mutants are becoming available.

Fast and slow recovery phases of goldfish behavior after transection of the optic nerve revealed by a computer image processing system

As the goldfish is a common experimental animal for vision research, including psychophysical behavior, it is very important to quantitatively score fish behavior. We have previously developed a computer image processing system which can acquire the positional coordinates of goldfish moving freely in an aquarium and determine turning directions (go straight, right or left turn). In the present study, an algorithm to determine tilting angles of moving goldfish was constructed. We also made histograms for quantifying the interaction between pairs of goldfish (two-point distance). By using these histograms, we estimated the time-course of behavioral regeneration after optic nerve transection in goldfish. Control goldfish showed an equal percentage of right or left turns and maintained an upright position in a dorsoventral axis. When the optic nerve of a goldfish was unilaterally sectioned, the goldfish showed predominant turning and slight tilting toward the intact eye. The abnormal turning and tilting behaviors lasted for 10-14 days and then gradually decreased, returning to control behaviors by one month after the unilateral transection. When the optic nerve of a single goldfish was bilaterally sectioned, it did not show any preferential turning and tilting behavior, which is similar to what was observed in control goldfish. However, the trace maps showed that, after bilateral sectioning, fish preferred to cross the center of the tank, which was unlike control fish. In control pairs, one goldfish chased the other with a fixed small range of two-point distances. However, in pairs of goldfish with bilateral transection of the optic nerve, the blind goldfish behaved independently of each other, with a long two-point distance. The long two-point distance of the blind goldfish lasted for at least two months and then slowly returned to control two-point distance by four months after bilateral transection. Such fast and slow recovery in goldfish behaviors evoked after unilateral and bilateral transection of the optic nerve is discussed with respect to reconnection of regenerating optic nerves in the fish central nervous system. This computer image processing system is a useful tool with which we can quickly and easily quantify fish behavior.