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Casting a Wider Net in Zebrafish Screening with Automated Microscopy and Image Analysis

recorded on:7/13/2021

Duration:60 minutes

Zebrafish are rapidly becoming a popular model organism for in vivo studies, particularly for drug screening and toxicology. Their benefits include fast development, economical husbandry, and direct amenability to microscopy since embryos are transparent. While imaging is fairly straightforward, in many cases, a substantial bottleneck to automated workflows is image analysis.

In this webinar, Dr. Jason Otterstrom and Dr. Alexandra Lubin describe the AI-powered analysis platform their teams have developed, highlighting a range of applications validating its performance. In brief, the easy-to-use software automatically identifies the fish outline, and internal anatomy & body regions with no required user inputs. They demonstrate the applicability of the solution in the context of counting GFP-labeled hematopoietic stem cells specifically in the tail region, along with measurement of x-ray induced apoptosis and dual-color analysis. In this fashion, this platform enables true high-content screening of zebrafish.

Key learning objectives:

  • What is high-content imaging and how does it apply to Zebrafish
  • How Deep-Learning can make analysis of zebrafish images truly high-content by extracting the fish’s anatomy
  • Learn example assays where automated microscopy can facilitate use of zebrafish for screening studies
  • One solution to orient zebrafish embryos without manual manipulation through specialized plates and software

Who should attend?

  • Researchers using zebrafish and microscopy in their work
  • Researchers looking for a model organism to do in vivo toxicology or drug screening
  • People interested in automated screening of whole organisms

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Jason Otterstrom, PhD

Application Scientist

IDEA Bio-Medical

Dr. Otterstrom obtained a Bachelor of Arts in Applied Physics at the University of Utah, during which time he tried his hand at research in fields of comparative physiology, bioengineering, NMR and radiotherapy. As a PhD student at Harvard University, he studied the biophysics of membrane fusion as mediated by influenza virus hemagglutinin protein using single-molecule microscopy techniques. He went on to obtain a Marie Curie fellowship to utilize super-resolution imaging to study chromatin fine-packing structure at the Institute of Photonic Sciences (ICFO) near Barcelona, Spain. As an application scientist for IDEA Bio-Medical he supports clients with adapting their diverse experiments and assays to be performed in the context of automated microscopy on the company’s flagship product, the WiScan Hermes.

Alexandra Lubin, PhD

Post-Doctoral Research Associate

UCL Cancer Institute

Dr. Lubin studied Natural Sciences at Jesus College at the University of Cambridge, specialising in Chemistry and graduating with a masters in 2014. From there Dr. Lubin moved to Imperial College London where she completed her PhD in Chemical Biology ‘Epigenetic therapeutics in malaria – a chemical biological approach towards the validation of histone lysine methyltransferase inhibition in P. falciparum.’ Dr. Lubin then joined the Laboratory of Prof. Elspeth Payne in the Cancer Institute at University College London as a post-doc in 2018. Using zebrafish as a model organism, they try to understand the mechanisms of myelodysplastic syndrome (MDS) and acute myeloid leukaemia (AML), with the aim of developing novel therapeutic avenues for these diseases. Her main project involves developing a high-throughput automated drug screen in live zebrafish embryos, to screen for novel compounds that are synthetic lethal to haematopoietic stem cells that carry mutations that are common in MDS and AML, in particular Dnmt3a.
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Main area(s) of research:
Cardiovascular Science
Cell Biology
Disease Modeling
Drug Discovery
Infectious Studies
Renal Physiology
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