Microfluidic-aided genotyping of zebrafish in the first 48 h with 100 % viability


This paper introduces an innovative method for genotyping 1–2 days old zebrafish embryos, without sacrificing the life/health of the embryos. The method utilizes microfluidic technology to extract and collect a small amount of genetic material from the chorionic fluid or fin tissue of the embryo. Then, using conventional DNA extraction, PCR amplification, and high resolution melt analysis with fluorescent DNA detection techniques, the embryo is genotyped. The chorionic fluid approach was successful 78 % of the time while the fin clipping method was successful 100 % of the time. Chorionic fluid was shown to only contain DNA from the embryo and not from the mother. These results suggest a novel method to genotype zebrafish embryos that can facilitate high-throughput screening, while maintaining 100 % viability of the embryo.

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JLB and RS were supported by NIH DP2 MH100008. The authors would like to thank the Wittwer Lab, and the State of Utah Center of Excellence in Biomedical Microfluidics at the University of Utah, for providing technical resources and expertise.

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

“All applicable international, national, and/or institutional guidelines for the care and use of animals were followed.”

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Correspondence to Joshua L. Bonkowsky or Bruce K. Gale.

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Samuel, R., Stephenson, R., Roy, P. et al. Microfluidic-aided genotyping of zebrafish in the first 48 h with 100 % viability. Biomed Microdevices 17, 43 (2015).

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  • Zebrafish
  • Genotyping
  • Microfluidics