Genomics can deliver great benefits to aquacultural breeding programs, including efficient management of diversity and inbreeding, accurate parentage assignment, optimal mating designs, improved breeding value prediction, selection decisions, and breeding strategies. Using the appropriate platform for the population of interest is critical. It is often expected that optimal results require a customized tool with a higher level of initial investment and larger ongoing costs. However, it is possible to keep costs reasonable with optimal outcomes through the creation or use of a collaboratively designed universal genotyping platform.
Collaborative genotyping solutions for specific species are created using diverse populations to ensure a design that contains a core set of markers with broad utility among all populations along with markers that capture specific population characteristics. The design also provides the ability to capture published markers associated with key traits. Many industry parties can benefit through using such platforms, creating a sample volume to keep costs reasonable and enabling results and outcomes that are easily compared and evaluated. As the platform is updated and improved, the benefit flows to all users. A successful example of this approach is in the livestock domain, where the widely used, collaboratively designed Illumina BovineSNP50 BeadChip array allows for high-throughput, cost-effective genetic screening for many genomic applications — including genomic selection — across both the dairy and beef industries. More recent extensions of this concept have been deployed as GeneSeek Genomic Profiler (GGPs) arrays. The updated content over time can leverage the continuously developing knowledge base about the genomic structure of a species as new tools and resources become available.
In this talk, Dr. Klara Verbyla, director of genomics and breeding and associate vice president of genetics at The Center for Aquaculture Technologies, will discuss the benefits of using such an approach for aquaculture species, as exemplified by the recent creation of a collaborative genotyping platform for L. vannamei shrimp designed using samples from 11 populations. Verbyla will discuss the design of the array, validating the array’s results, achieving maximal benefit from such an array, and the economic impacts of creating and using such genotyping platforms.
Klara Verbyla, PhD
Director, Genomics & Breeding and Vice President, Genetics
The Center for Aquaculture Technologies (CAT)