Application of deep learning for evaluation of the growth rate of Daphnia magna.

Journal: Journal of bioscience and bioengineering
Published Date:

Abstract

For the safe use of chemicals widely used in human activities, it is crucial to assess their ecological impacts when released into the environment. Daphnia, a well-established environmental indicator species, is commonly used to evaluate the biological effects of chemicals and testing methods have been established. Among various indicators, the growth rate is one of the important parameters, but it requires significant time and effort to measure. In this study, we applied deep learning-based image recognition techniques to extract images of Daphnia from live imaging and assess their size. The estimated size of Daphnia, derived from images processed through deep learning, showed a high correlation with measured values, demonstrating the capability to measure Daphnia size from the images while they are swimming. This approach enables non-invasive measurements of Daphnia size without complicated procedures, which not only streamlines ecological impact assessments but also presents a valuable technique for ecological studies, such as analyzing the size distribution of zooplankton.

Authors

  • Shinsuke Inagaki
    Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan.
  • Yohei Kondo
    Quantitative Biology Research Group, Exploratory Research Center on Life and Living Systems (ExCELLS), National Institutes of Natural Sciences, 5-1 Higashiyama, Myodaiji-cho, Okazak, Aichii, 444-8787 Japan.
  • Pijar Religia
    Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan.
  • Nikko Adhitama
    Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan.
  • Yasuhiko Kato
    Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan.
  • Eiji Watanabe
    Department of Basic Biology, School of Life Science, The Graduate University for Advanced Studies (SOKENDAI), Myodaiji-cho, Okazaki, Aichi 444-8787, Japan; AI Facility, Trans-Scale Biology Center, National Institute for Basic Biology, 5-1 Higashiyama, Myodaiji, Okazaki, Aichi 444-8787, Japan; Laboratory of Neurophysiology, National Institute for Basic Biology, 5-1 Higashiyama, Myodaiji, Okazaki, Aichi 444-8787, Japan.
  • Hajime Watanabe
    Department of Biotechnology, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan; Institute for Open and Transdisciplinary Research Initiatives, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan. Electronic address: watanabe@bio.eng.osaka-u.ac.jp.