Using collision cones to assess biological deconfliction methods

Brace, Natalie; Hedrick, Tyson L.; Theriault, Diane; Fuller, Nathan W.; Wu, Zheng; Betke, Margrit; Parrish, Julia K.; Grünbaum, Daniel; Morgansen, Kristi A.

doi:10.1098/rsif.2016.0502

Cited by 17 publications

(9 citation statements)

References 37 publications

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“…However, the degree of alignment to the i th neighbour varies with distance to that neighbour as expected under physical distance behavioural rules (figures 3 c and 4 b ), so that even if swifts limit their interaction to a finite n neighbours, the strength of the interaction is weighted by physical distance. For this reason, topological and physical distance metrics are difficult to differentiate without large datasets of varying animal density, possibly explaining support for topological rules recently noted in studies with much smaller groups (15–86) [ 23 ].…”

Section: Discussionmentioning

confidence: 94%

Three-dimensional trajectories and network analyses of group behaviour within chimney swift flocks during approaches to the roost

et al. 2017

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Chimney swifts (Chaetura pelagica) are highly manoeuvrable birds notable for roosting overnight in chimneys, in groups of hundreds or thousands of birds, before and during their autumn migration. At dusk, birds gather in large numbers from surrounding areas near a roost site. The whole flock then employs an orderly, but dynamic, circling approach pattern before rapidly entering a small aperture en masse. We recorded the three-dimensional trajectories of ≈1 800 individual birds during a 30 min period encompassing flock formation, circling, and landing, and used these trajectories to test several hypotheses relating to flock or group behaviour. Specifically, we investigated whether the swifts use local interaction rules based on topological distance (e.g. the n nearest neighbours, regardless of their distance) rather than physical distance (e.g. neighbours within x m, regardless of number) to guide interactions, whether the chimney entry zone is more or less cooperative than the surrounding flock, and whether the characteristic subgroup size is constant or varies with flock density. We found that the swift flock is structured around local rules based on physical distance, that subgroup size increases with density, and that there exist regions of the flock that are less cooperative than others, in particular the chimney entry zone.

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Section: Discussionmentioning

confidence: 94%

Three-dimensional trajectories and network analyses of group behaviour within chimney swift flocks during approaches to the roost

et al. 2017

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“…The most representative parameters of the analysis, reflecting the average embryo behavior within the various treatment groups, are illustrated in Figure 4 . Namely, two groups of locomotor alterations, the first dynamic (distance moved and velocity) and the second static (heading and rotation), after lanthionine and/or GSH treatment [ 16 ], were considered. In particular, rotation is related to the circular rotation of an embryo around its own body axis and heading is the inclination of an embryos head in degrees with respect to the water layer [ 16 ].…”

Section: Resultsmentioning

confidence: 99%

Zebrafish, a Novel Model System to Study Uremic Toxins: The Case for the Sulfur Amino Acid Lanthionine

Perna

Anishchenko

Vigorito

et al. 2018

IJMS

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The non-proteinogenic amino acid lanthionine is a byproduct of hydrogen sulfide biosynthesis: the third endogenous vasodilator gas, after nitric oxide and carbon monoxide. While hydrogen sulfide is decreased in uremic patients on hemodialysis, lanthionine is increased and has been proposed as a new uremic toxin, since it is able to impair hydrogen sulfide production in hepatoma cells. To characterize lanthionine as a uremic toxin, we explored its effects during the early development of the zebrafish (Danio rerio), a widely used model to study the organ and tissue alterations induced by xenobiotics. Lanthionine was employed at concentrations reproducing those previously detected in uremia. Light-induced visual motor response was also studied by means of the DanioVision system. Treatment of zebrafish embryos with lanthionine determined acute phenotypical alterations, on heart organogenesis (disproportion in cardiac chambers), increased heart beating, and arrhythmia. Lanthionine also induced locomotor alterations in zebrafish embryos. Some of these effects could be counteracted by glutathione. Lanthionine exerted acute effects on transsulfuration enzymes and the expression of genes involved in inflammation and metabolic regulation, and modified microRNA expression in a way comparable with some alterations detected in uremia. Lanthionine meets the criteria for classification as a uremic toxin. Zebrafish can be successfully used to explore uremic toxin effects.

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“…At one extreme, an animal may simply turn multi-objective control to a single-objective control by focusing only on the most immediate task [12] or that which can be achieved with the least disruption to some longer-term goal [89]. An alternative is to represent objectives in some form of common currency and to choose between them using heuristics [90] or time-varying weights [38]. The extent to which algorithms for evasion trajectory control resemble these alternatives and how such algorithms are implemented in the brain remain to be discovered.…”

Section: Open Questions About Pursuit and Evasion Algorithmsmentioning

confidence: 99%

An Algorithmic Approach to Natural Behavior

et al. 2020

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Uncovering the mechanisms and implications of natural behavior is a goal that unites many fields of biology. Yet, the diversity, flexibility, and multi-scale nature of these behaviors often make understanding elusive. Here, we review studies of animal pursuit and evasion -two special classes of behavior where theory-driven experiments and new modeling techniques are beginning to uncover the general control principles underlying natural behavior. A key finding of these studies is that intricate sequences of pursuit and evasion behavior can often be constructed through simple, repeatable rules that link sensory input to motor output: we refer to these rules as behavioral algorithms. Identifying and mathematically characterizing these algorithms has led to important insights, including the discovery of guidance rules that attacking predators use to intercept mobile prey, and coordinated neural and biomechanical mechanisms that animals use to avoid impending collisions. Here, we argue that algorithms provide a good starting point for studies of natural behavior more generally. Rather than beginning at the neural or ecological levels of organization, we advocate starting in the middle, where the algorithms that link sensory input to behavioral output can provide a solid foundation from which to explore both the implementation and the ecological outcomes of behavior. We review insights that have been gained through such an algorithmic approach to pursuit and evasion behaviors. From these, we synthesize theoretical principles and lay out key modeling tools needed to apply an algorithmic approach to the study of other complex natural behaviors.

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Using collision cones to assess biological deconfliction methods

Cited by 17 publications

References 37 publications

Three-dimensional trajectories and network analyses of group behaviour within chimney swift flocks during approaches to the roost

Three-dimensional trajectories and network analyses of group behaviour within chimney swift flocks during approaches to the roost

Zebrafish, a Novel Model System to Study Uremic Toxins: The Case for the Sulfur Amino Acid Lanthionine

An Algorithmic Approach to Natural Behavior

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