Neuron ID dataset facilitates neuronal annotation for whole-brain activity imaging of C. elegans

Yu Toyoshima, Stephen Wu, Manami Kanamori, Hirofumi Sato, Moon Sun Jang, Suzu Oe, Yuko Murakami, Takayuki Teramoto, Chanhyun Park, Yuishi Iwasaki, Takeshi Ishihara, Ryo Yoshida, Yuichi Iino

研究成果: ジャーナルへの寄稿学術誌査読

8 被引用数 (Scopus)


Background: Annotation of cell identity is an essential process in neuroscience that allows comparison of cells, including that of neural activities across different animals. In Caenorhabditis elegans, although unique identities have been assigned to all neurons, the number of annotatable neurons in an intact animal has been limited due to the lack of quantitative information on the location and identity of neurons. Results: Here, we present a dataset that facilitates the annotation of neuronal identities, and demonstrate its application in a comprehensive analysis of whole-brain imaging. We systematically identified neurons in the head region of 311 adult worms using 35 cell-specific promoters and created a dataset of the expression patterns and the positions of the neurons. We found large positional variations that illustrated the difficulty of the annotation task. We investigated multiple combinations of cell-specific promoters driving distinct fluorescence and generated optimal strains for the annotation of most head neurons in an animal. We also developed an automatic annotation method with human interaction functionality that facilitates annotations needed for whole-brain imaging. Conclusion: Our neuron ID dataset and optimal fluorescent strains enable the annotation of most neurons in the head region of adult C. elegans, both in full-automated fashion and a semi-automated version that includes human interaction functionalities. Our method can potentially be applied to model species used in research other than C. elegans, where the number of available cell-type-specific promoters and their variety will be an important consideration.

ジャーナルBMC biology
出版ステータス出版済み - 3月 19 2020

!!!All Science Journal Classification (ASJC) codes

  • バイオテクノロジー
  • 構造生物学
  • 生態、進化、行動および分類学
  • 生理学
  • 生化学、遺伝学、分子生物学(全般)
  • 農業および生物科学(全般)
  • 植物科学
  • 発生生物学
  • 細胞生物学


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