Toward an Integrated Zebrafish Health Management Program Supporting Cancer and Neuroscience Research

Martins, Sandra; Monteiro, Joana F.; Vito, Maria; Weintraub, David A.; Almeida, Joana; Certal, Ana C.

doi:10.1089/zeb.2015.1198

Cited by 43 publications

(41 citation statements)

References 18 publications

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“…Zebrafish, D. rerio, of the wild-type TU strain were raised by the Champalimaud Foundation Fish Platform, according to methods in [40]. Experimental procedures were approved by the Champalimaud Foundation Ethics Committee and the Portuguese Direcção Geral Veterinária in accordance to to the European Directive 2010/63/EU.…”

Section: Animal Rearing and Handlingmentioning

confidence: 99%

Deep attention networks reveal the rules of collective motion in zebrafish

Heras

Romero-Ferrero

Hinz

et al. 2018

Preprint

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A variety of simple models has been proposed to understand the collective motion of animals. These models can be insightful but lack important elements necessary to predict the motion of each individual in the collective. Adding more detail increases predictability but can make models too complex to be insightful. Here we report that deep attention networks can obtain in a data-driven way a model of collective behavior that is simultaneously predictive and insightful thanks to an organization in modules. The model obtains that interactions between two zebrafish, Danio rerio, in a large groups of 60-100, can be approximately be described as repulsive, attractive or as alignment, but only when moving slowly. At high velocities, interactions correspond only to alignment or alignment mixed with repulsion at close distances. The model also shows that each zebrafish decides where to move by aggregating information from the group as a weighted average over neighbours. Weights are higher for neighbours that are close, in a collision path or moving faster in frontal and lateral locations. These weights effectively select 5 relevant neighbours on average, but this number is dynamical, changing between a single neighbour to up to 12, often in less than a second. Our results suggest that each animal in a group decides by dynamically selecting information from the group. Highlights• At 30 days postfertilization, zebrafish, Danio rerio, can move in very cohesive and predictable large groups• Deep attention networks obtain a predictive and understadable model of collective motion• When moving slowly, interations between pairs of zebrafish have clear components of repulsion, attraction and alignment• When moving fast, interactions correspond to alignment and a mixture of alignment and repulsion at close distances • Zebrafish turn left or right depending on a weighted average of interaction information with other fish, with weights higher for close fish, those in a collision path or those moving fast in front or to the sides • Aggregation is dynamical, oscillating between 1 and 12 neighbouring fish, with 5 on average

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Section: Animal Rearing and Handlingmentioning

confidence: 99%

Deep attention networks reveal the rules of collective motion in zebrafish

Heras

Romero-Ferrero

Hinz

et al. 2018

Preprint

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“…Fish were raised and maintained at the Champalimaud Fish Platform according to Martins et al (2016) and manipulated by staff accredited for animal experimentation by the Portuguese Veterinary Agency (DGAV) [10]. Abstract.…”

Section: Rgb-d Camera Applicationsmentioning

confidence: 99%

Image Analysis and Recognition

2016

Lecture Notes in Computer Science

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In this paper, we consider a new method for representing complex images, e.g., hyperspectral images and video sequences, in terms of function-valued mappings (FVMs), also known as Banach-valued functions. At each (pixel) location x, the FVM image u(x) is a function, as opposed to the traditional vector approach. We define the Fourier transform of an FVM as well as Euler-Lagrange conditions for functionals involving FVMs and then show how these results can be used to devise some FVM-based methods of denoising. We consider a very simple functional and present some numerical results.

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“…It is both a celebration of the extraordinary growth of the model and an initiation of a discussion on ways to capitalize on what has been learned about zebrafish husbandry and health so that zebrafish can continue to be an outstanding model, whether one has a single small tank or a gigantic facility. This collection of 23 articles submitted by contributors from around the world addresses a wide range of issues ranging from management of many types and sizes of zebrafish research facilities, [5][6][7][8][9][10] strategies for monitoring colony health, [11][12][13][14] case reports of pathogen outbreaks in zebrafish colonies, 15,16 results of studies of endemic and exotic pathogens, [17][18][19] testing of disinfection protocols, 20 establishing regulations for health surveillance for zebrafish importation, 21 to standardization of reporting on health status, 8,[22][23][24] nomenclature, 25 and nutrition. 26 We view this as the beginning of a community-wide dialogue that will promote zebrafish health and thus enhance research productivity and validity of results.…”

mentioning

confidence: 99%

“…In particular, articles by Martins et al and Borges et al provide an excellent level of detail on a variety of environmental and husbandry parameters. 11,13 The articles describing management strategies at the International, European, Chinese, and Taiwanese Stock Centers are also instructive in terms of the information they collect and report. [7][8][9][10] The articles presented here also reveal beginning steps in the sophistication of certain husbandry methods, especially as they relate to the evaluation and quantification of common practices.…”

mentioning

confidence: 99%

“…A commonality among all of the different quarantine arrangements is to further the aim of ensuring that both zebrafish and personnel within a facility are protected from pathogens that may be carried by imported fish. 6,7,[9][10][11]13 Larger facilities or those that aspire to be specifically pathogen free may consider more elaborate, multistage quarantine that can afford increased health surveillance opportunities and thus contribute to improved health monitoring that will benefit not only those facilities but also the community at large. 5,8,15,16 Surface disinfection of fish embryos, typically by sodium hypochlorite (bleach), [32][33][34] is another essential component of fish health management.…”

mentioning

confidence: 99%

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