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Whole-brain activity mapping onto a zebrafish brain atlas.

Publication ,  Journal Article
Randlett, O; Wee, CL; Naumann, EA; Nnaemeka, O; Schoppik, D; Fitzgerald, JE; Portugues, R; Lacoste, AMB; Riegler, C; Engert, F; Schier, AF
Published in: Nat Methods
November 2015

In order to localize the neural circuits involved in generating behaviors, it is necessary to assign activity onto anatomical maps of the nervous system. Using brain registration across hundreds of larval zebrafish, we have built an expandable open-source atlas containing molecular labels and definitions of anatomical regions, the Z-Brain. Using this platform and immunohistochemical detection of phosphorylated extracellular signal–regulated kinase (ERK) as a readout of neural activity, we have developed a system to create and contextualize whole-brain maps of stimulus- and behavior-dependent neural activity. This mitogen-activated protein kinase (MAP)-mapping assay is technically simple, and data analysis is completely automated. Because MAP-mapping is performed on freely swimming fish, it is applicable to studies of nearly any stimulus or behavior. Here we demonstrate our high-throughput approach using pharmacological, visual and noxious stimuli, as well as hunting and feeding. The resultant maps outline hundreds of areas associated with behaviors.

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Published In

Nat Methods

DOI

EISSN

1548-7105

Publication Date

November 2015

Volume

12

Issue

11

Start / End Page

1039 / 1046

Location

United States

Related Subject Headings

  • Zebrafish
  • Swimming
  • Software
  • Reproducibility of Results
  • Principal Component Analysis
  • Phosphorylation
  • Neurons
  • Neurites
  • Microscopy, Confocal
  • Immunohistochemistry
 

Citation

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Randlett, O., Wee, C. L., Naumann, E. A., Nnaemeka, O., Schoppik, D., Fitzgerald, J. E., … Schier, A. F. (2015). Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods, 12(11), 1039–1046. https://doi.org/10.1038/nmeth.3581
Randlett, Owen, Caroline L. Wee, Eva A. Naumann, Onyeka Nnaemeka, David Schoppik, James E. Fitzgerald, Ruben Portugues, et al. “Whole-brain activity mapping onto a zebrafish brain atlas.Nat Methods 12, no. 11 (November 2015): 1039–46. https://doi.org/10.1038/nmeth.3581.
Randlett O, Wee CL, Naumann EA, Nnaemeka O, Schoppik D, Fitzgerald JE, et al. Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods. 2015 Nov;12(11):1039–46.
Randlett, Owen, et al. “Whole-brain activity mapping onto a zebrafish brain atlas.Nat Methods, vol. 12, no. 11, Nov. 2015, pp. 1039–46. Pubmed, doi:10.1038/nmeth.3581.
Randlett O, Wee CL, Naumann EA, Nnaemeka O, Schoppik D, Fitzgerald JE, Portugues R, Lacoste AMB, Riegler C, Engert F, Schier AF. Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods. 2015 Nov;12(11):1039–1046.

Published In

Nat Methods

DOI

EISSN

1548-7105

Publication Date

November 2015

Volume

12

Issue

11

Start / End Page

1039 / 1046

Location

United States

Related Subject Headings

  • Zebrafish
  • Swimming
  • Software
  • Reproducibility of Results
  • Principal Component Analysis
  • Phosphorylation
  • Neurons
  • Neurites
  • Microscopy, Confocal
  • Immunohistochemistry