Bacterial collective swarming and navigation · 2012-11-13 · PDE models • High density (crowd...
Transcript of Bacterial collective swarming and navigation · 2012-11-13 · PDE models • High density (crowd...
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Bacterial collective swarming and navigation
Gil Ariel – Bar Ilan University
in collaboration with
Oren Kalisman, Adi Shklarsh and Eshel Ben-Jacob – TAU
Colin Ingham – Wageningen University
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What is swarming of bacteria
[Kearns ’10]
A mode of motion
• Movement using flagella – mechanical motors. • High density • Above surfaces • Extracellular matrix - hydration layer, surfactants. • Approximately 2D
Swarming of P. dendritiformis by Avraham Be’er – Ben Gurion U
movie with flow
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Swarming as a selfish herd
Individuals benefit by being part of a group but otherwise compete
• Minimally cooperation - decide whether to swarm, quorum sensing, assessment of surfaces and nutrients
• Competition on location - occupy the colony periphery.
Uncoordinated expansion.
[Darnton et al 10; Wu and Berg ’12; Kearns ‘10…]
Requires communication
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Swarming as a selfish herd
The dynamics inside a swarm
• Rapid mixing of cells • Many length scales • Chemotaxis – run and tumble
[Chen et al ‘12; Sokolov et al ’07; Zhang et al ‘12]
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Swarming in coherent groups
Swarming of P. vortex – single branch streams with flow
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Swarming in coherent groups
• Movement in organized groups • Stable streams and vortices – traffic lanes • Collective maneuvers • Cooperation instead of competition • Sharing of resources
[Ingham and Ben-Jacob ‘08; Ingham et al ‘11]
Swarming of P. vortex
Challenges the classical view of swarming
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Collective navigation
0.2mm
Food source
Navigation toward a source 1source 2sources
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Swarming in coherent groups
Collective navigation
Optical flow analysis: The turning point predicts direction
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Swarming in coherent groups
Collective navigation
Optical flow analysis: The turning point predicts direction
Bacteria use the internal organization to navigate the tip.
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Modeling
• Biological perspective: Identify the key interactions and communication mechanisms bacteria use for cooperation and strategy selection. • Mathematical perspective: - A bottom-up approach. - Study the interaction between the internal flow and a dynamic boundary. - A non- standard fluid model - sheer flow.
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Modeling
• 2D
• Agent based modeling – coarse graining, groups of bacteria.
• Dynamic envelope
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Modeling
• Self propelled particles Acceleration depends on food, Inelastic collisions Alignment b/w agents and boundary, Repulsion from neighbors. • Dynamic envelope Surface tension, A phenomenological expression for the normal speed of the boundary 𝑣 × 𝑣 × 𝛻𝑛.
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Two stable dynamical states • Standing tip with 2 lanes. movie • Advancing tip with 3 lanes. movie
Modeling Results
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Modeling Results
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Analysis of the flow
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What we learn from simulations
• Interaction depend on velocity. alignment and speed matching dominate over collisions. • Strong coupling between flow and boundary – bacteria use the internal organization to navigate the tip.
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PDE models
• High density (crowd dynamics)
• Free boundary
• Director fields (liquid crystals)
• Sheer flow – the velocity field is discontinuous
movie
Previous approaches fail Non-linear diffusion [Ben-Jacob et al ’96 ‘00] Non-local kinetic equation [Mogilner and Edelshtein-Keshet et al ‘99, Topaz and Bertozzi ‘04] and more …
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Swarming logistics
multiscale approach
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