Farm-based nanopore sequencing study reports reliable genetic testing results

A University of Queensland study has demonstrated that on-farm genetic testing using low-pass nanopore sequencing can provide reliable results for cattle producers in northern Australia. Associate Professor Elizabeth Ross, leading the research team from QAAFI, reported that the technology successfully delivered reliable data for age, genomic breeding values (GBVs), and parentage for approximately 24 animals within 24 hours on each of three commercial farms.

Low-pass nanopore sequencing reads about 10% of the total genome, compared to SNP array-based genotyping, which reads 30,000-100,000 DNA positions. This method proved to be a practical solution for northern beef systems, as it eliminates the need for multiple musters and traditional lab turnaround times. The study also found that hair samples are an excellent source for this type of testing, as they are already commonly used by producers during routine management practices.

Despite remaining challenges in commercialization, the research demonstrated the potential of low-pass nanopore sequencing to provide accurate age estimates, parentage assignments, and GBVs. On-farm testing generated results within 24 hours, with DNA preparation taking about four hours. While cost remains a barrier, 40% of surveyed producers expressed willingness to pay a premium for faster results.

This research marks the first time that a single low-cost sequencing test has provided accurate age estimates, parentage values, and GBVs in Australia's northern herds.