Science News: IYAK Micronutrient Research
PRELIMINARY DATA IS IN!
Posted on November 29, 2018 at 4:44 pm.
ATTENTION IYAK MEMBERS WHO WILL BE SHOWING AT THE 2018 NWSS. PRELIMINARY DATA IS IN! WE WILL updatING membership ON THE preliminary data from the MICRONUTRIENT STUDY AND THANKING THE 12 RANCHES THAT WORKED SO HARD TO SUBMIT THEIR MUTI-ANIMAL SAMPLES! Learn more about IYAK Micronutrient research Here >>
Scientific First: IYAKs Ground Breaking Research on Yak Genome Sequencing
Posted on July 18, 2018 at 9:21 pm.
By Nicole Porter, PhD
I am excited to report that the International Yak Association in conjunction with GeneSeek (Neogen) is singlehandedly responsible for the development of exciting and groundbreaking technology and DNA testing proprietary to the International Yak Association (IYAK) and not available anywhere else. It is a scientific first of great importance to breeders, consumers, and academic researchers of yak. Ted Kalbfleisch, CEO, of Intrepid Bioinformatics says the operations that he developed for IYAK, with GeneSeek and Mike Heaton of the USDA is “the only test of it’s kind anywhere in the world.”
There are some fascinating revelations here and several papers will be published by IYAK and research academics in top-tier academic journals, as well as press releases made to media and blog aggregator on these exciting findings. Let me tell you a little about our preliminary results.
In 2014, the Board of Directors of International Yak Association (IYAK) initiated, organized, funded and began this research in conjunction with Dr. Michael Heaton of the USDA, Meat and Animal Research Center (USMARC) Clay Center, Nebraska. Genome Committee members choose 200 IYAK foundation animals selected for their representative genome and ongoing genetic contributions to the current Tibetan Yak in North America. Like much research, the determination of DNA sequences in an individual is relatively slow and very costly. However, in 2018, we have identified 95 SNPs (or genetic markers) in the yak genome. Employed by IYAK, the genetic testing company (GeneSeek in Lincoln, Nebraska is Neogen company) has developed a test that uses these markers and provides tests to yak breeders at a reasonable cost (Read More about participating in Yak Registration and Your Genome Report Here).
FUNCTIONALITY OF DNA AND SNP TESTING
DNA testing has many uses that are important to a breed association, such as parentage verification, degree of cattle introgression, genetic diversity, and inbreeding. It is also possible to identify important health traits, such as whether or not the yak is a carrier of a genetic disorder. However, while other yak associations and researchers may eventually have access to proprietary IYAK tools and become allowed to utilize Dr. Heaton's GeneSeek test for DNA testing analyses, the results only become useful information to ranchers and breeders when compared with the IYAK population as a whole and using the proprietary dataset contributed to and created by the IYAK. For example, we can now tell IYAK members wether or not their yaks are carriers of the Prion gene and wether their offspring are at risk of inheritance of fatal neurodegenerative diseases including "mad cow disease". In time, as our IYAK database grows we will be able to identify many more genetic disorders (See additional testable traits here).
The GeneSeek test is designed to be used in the following ways.
Parentage. This DNA sequencing test, based on Single Nucleotide Polymorphisms (SNPs or “Snips”) from IYAKs 200 foundation animals, is more accurate and reliable than older methods of parental determination. This is ideal for verifying pedigree accuracy, and in identifying parentage in multi-sire pasture matings.
Cattle Introgression. Worldwide hybridization has taken its tole on the yak genome. The North American IYAK population is a small, remnant population that arguably represents some of the most representative Wild-type yak genetics left on the planet. These tests are critical to preserving breed integrity in the IYAK herd. We can detect even small amounts of hybridization with cattle (Bos taurus or Bos indicus) and have the ability to evaluate indications of ancestral vs. recent introgression. Once the percentage of cattle contribution is 4 alleles or above (1.5%), they may be evaluated in conjunction with other indicators and may not be considered foundation yak and may be excluded from IYAK’s registrations in the North American Yak Registry (NAYR). We can even read indications of introgression that occurred recently, or if it happened prior to the split in our bovine evolutionary history. This test is also important because most researchers suggest that cattle hybridization is a source of cattle related diseases and genetic disorders, such as the Prion gene responsible for "mad cow disease". We currently have a very vigorous and healthy yak population in North America, it is critical we maintain this quality for the future of the IYAK herd.
Coefficient of Inbreeding (COI): Inbreeding is a concern to all species of breed association because there is a tendency to breed the most desirable animals regardless of their heritage or deleterious traits. Like the North American bison population which has steadily recovered from an estimated 700 animals in the mid 1880’s, to an estimated 385,000 bison today, the Tibetan Yak in North America are descended from a small foundation population. A test for genetic diversity was important to discover how much inbreeding had occurred in the North American herd.
Genetic testing has enabled IYAK to more accurately quantify the amount of inbreeding in our population. As reported at the 2018 NWSS our data indicates an average COI of 6%. In our analysis of new data, and when correcting for the artificial inflation of arrogate data, the COI is currently calculated as 1.3%. This is surprisingly low and very impressive. It is exciting preliminary data, but we will need to gather more samples to validate these numbers. In the meantime, all of these percentages are at or significantly below "optimal" breeding standards for national and international breed associations. Here again we have an exceptional yak herd with an exceptional genome - this is a testament to the careful breeding practices of our founding members, the original yak herders. In North America we are currently seeing few reported problems related to lack of genetic diversity, such as yaks that are smaller in size, exhibit a failure to thrive, infertile, or carry genetic disorders. This should be protected. We all have a responsibility to continue to maintain these rigorous and successful line-breeding practices, to learn and teach them to new IYAK members, and defend this diversity in our Association's Code of Ethics commitment as well as it's missions statement. Breeders will be informed of their COI in relation to our growing database and can use this to manage their herds for optimal health.
Trait Identification: Just as with genetic disorders, with genetic testing, we can begin to report desirable traits that are more likely to be heritable. This preliminary data will allow breeders to have additional information to begin to select specific phenotypic traits for breeding and to increase targeted traits. For example, research suggests that white yak are the product of inheritance of a gene acquired from various cattle when mated to yak resulting in white hybrid yaks. Similarly, other undesirable traits can be "bred out", and deleterious ones can be eliminated from breeding programs.
These are exciting times for the International Yak Association. So much progress and so many scientific and ethical advances are being made by our association today. The hard work of the dedicated and diligent Leadership Team over the last decade is paying off. All of this is generating new interest and new energy. So much is popping now, I can't wait to continue to keep you updated on the IYAK efforts. I'm happy to share my ideas and opinion if you would like to contact me.
Nicole Porter-Salvato, PhD is one of the caretakers and founders of Prairie Sky Sanctuary, a horse and yak ranch in SW Wisconsin. She’s trained in epigenetic and epidemiology, an avid IYAK supporter, BOD member and yak lover. She and her husband, Dan, are always available to talk about yak, answer questions and provide resources.