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CRISPR-Cas-Based Biomonitoring for Marine Environments: Toward CRISPR RNA Design Optimization Via Deep Learning.

Benjamín Durán-Vinet1,2, Karla Araya-Castro2, Anastasija Zaiko3,4,5

  • 1Department of Anatomy, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand; Berkeley, Berkeley, California, USA.

The CRISPR Journal
|July 13, 2023
PubMed
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CRISPR-based diagnostics offer rapid, ultrasensitive marine biomonitoring. Integrating artificial intelligence with CRISPR technology can overcome challenges in assay design, advancing marine ecosystem protection.

Area of Science:

  • Marine biology
  • Molecular diagnostics
  • Bioinformatics

Background:

  • Oceans face multiple anthropogenic stressors, including invasive species, harmful algal blooms, and pathogens.
  • Effective management of marine ecosystems requires early detection of these threats.
  • Molecular tools, particularly CRISPR-based diagnostics (CRISPR-Dx), show promise for marine biomonitoring.

Purpose of the Study:

  • To review recent advancements in CRISPR-Dx for marine biomonitoring.
  • To explore the potential of artificial intelligence (AI) in designing and optimizing CRISPR-Dx assays.
  • To highlight the challenges and future directions for implementing CRISPR-Dx in marine applications.

Main Methods:

  • Synthesis of recent literature on CRISPR-Dx technology.

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  • Review of machine learning approaches for CRISPR assay design.
  • Analysis of the applicability of CRISPR-Dx in marine environmental monitoring.

    • Main Results:

    • CRISPR-Dx offers programmable, rapid, ultrasensitive, and specific detection capabilities.
    • AI can accelerate the design, optimization, and validation of CRISPR-Dx assays.
    • CRISPR-Dx holds potential for cost-effective, real-time marine biomonitoring.

    Conclusions:

    • CRISPR-Dx is a promising molecular tool for marine biomonitoring.
    • AI integration is crucial for overcoming current limitations in CRISPR-Dx assay development.
    • Further research and validation are needed to establish CRISPR-Dx as a mainstream tool for marine ecosystem management.