The behavioral space of zebrafish locomotion and its neural network analog

Girdhar, Kiran

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https://hdl.handle.net/2142/88265 Copy

Description

Title

The behavioral space of zebrafish locomotion and its neural network analog

Author(s)

Girdhar, Kiran

Issue Date

2015-07-14

Director of Research (if dissertation) or Advisor (if thesis)

• Chemla, Yann R.
• Gruebele, Martin

Doctoral Committee Chair(s)

• Chemla, Yann R.
• Martin Gruebele

Committee Member(s)

• Nelson, Mark E.
• Delcomyn, Fred

Department of Study

School of Molecular & Cell Bio

Discipline

Biophysics & Computnl Biology

Degree Granting Institution

University of Illinois at Urbana-Champaign

Degree Name

Ph.D.

Degree Level

Dissertation

Keyword(s)

• Zebrafish Swimming
• Behavioral Space
• Quantitative Behavior
• Eigenfish
• Neural Model

Abstract

How simple is the underlying control mechanism for the complex locomotion of vertebrates? I explore this question for the free-swimming behavior of zebrafish larvae. A parameter-independent method, similar to that used in studies of worms and flies, is applied to analyze swimming movies of fish. The motion itself yields a natural set of fish “eigenshapes” as axes, rather than the experimenter imposing a choice of coordinates. Three eigenshape coordinates are sufficient to construct a quantitative “postural space” that captures >96% of the observed zebrafish locomotion. Viewed in postural space, swim bouts are manifested as trajectories consisting of cycles of shapes repeated in succession. To classify behavioral patterns quantitatively and to understand behavioral variations among an ensemble of fish, we construct a “behavioral space” using multi-dimensional scaling (MDS). This method turns each cycle of a trajectory into a single point in behavioral space, and clusters points based on behavioral similarity. Clustering analysis reveals three known behavioral patterns—scoots, turns, rests—but shows that these do not represent discrete states, but rather extremes of a continuum. The behavioral space not only classifies fish by their behavior but also distinguishes fish by age. In addition to this, I have quantified escape response behavior of fish to acoustic stimuli. A parameter-free analysis was done on escape response fish movies and free-swimming movie together. The analysis showed a set of three eigenshapes is sufficient to construct the quantitative postural space to observe two different behaviors: ’escape response’ and free-swimming’ on same axes. With the insight into fish behavior from postural space and behavioral space, I construct a two-channel neural network model for fish locomotion, which produces strikingly similar postural space and behavioral space dynamics compared to real zebrafish.

Graduation Semester

2015-8

Type of Resource

text

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http://hdl.handle.net/2142/88265

Copyright and License Information

2015 Kiran Girdhar

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