The University of Missouri is recruiting 2,500 Hereford heifers and 2,500 Red Angus heifers to participate in a heifer puberty and fertility genomic research project. Heifers should be registered Hereford, registered Red Angus, or commercial Hereford or Red Angus. Hereford x Red Angus crossbred heifers targeted for the Premium Red Baldy Program would also be a good fit for the research project. Producers must be willing to work with a trained veterinarian to collect the following data: ReproductiveTract Scores collected at a pre-breeding exam 30 to 45 days prior to the start of the breeding season. PelvicMeasurements (height and width) collected at the same pre-breeding exam 30 to 45 days prior to the start of the breeding season. Pregnancy Determination Using Ultrasound reporting fetal age in days. Ultrasound will need to occur no later than 90 days after the start of the breeding season. In addition, heifers must have known birth dates and have weights recorded eithe
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Doctor Bovine Genome or: How I Learned to Stop Worrying and Fix the Assembly
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I know, this is a very strange title for a post. More about that later...
USDA Fellowship
In this post I want to introduce you to part of my day-to-day research. In August of this year, I was awarded a USDA NIFA Postdoctoral Fellowship. I was awarded this fellowship for two reasons: to prepare to become a leader in agricultural science and to complete a specific project. My project is reassembly of the bovine reference genome sequence.
Motivation: Why are we reassembling the bovine genome?
The completion of the draft human genome sequence was announced to much fanfare in 2000. But, the work of finishing the human genome still continues. Two versions of the bovine reference sequence, by the Baylor College of Medicine and the University of Maryland, were published in 2009. At that time the bovine genomics community began discussing how to improve the draft assembly. Key players suggested that more sequence data on L1 Dominette 01449, the cow on whom the reference sequence is based, would be the best step to improve the assembly. Subsequently, this additional data was generated.
L1 Dominette 01449, courtesy Michael MacNeil, USDA
My Experience
Scientists who work with draft genomes know to watch for errors in the reference. As part of my Ph.D. training, I did a local assembly of a 400,000 base pair region to identify a DNA rearrangement which controls a phenotypic trait. When I finished, the Baylor reference, Maryland reference, and my assembly had numerous disagreements about the sequence of this region. I decided that if I was going to be successful in identifying variants which underlie phenotypic variation, I was going to need a better reference.
Volunteering
Last winter, I wrote a USDA NIFA Postdoctoral Fellowship proposal in which I volunteered to take the existing data that was waiting to be analyzed and lead the reassembly of the bovine reference genome sequence. Leaders in the bovine genomics community supported my application and agreed to share sequence data for the reassembly effort. Fortunately, Uncle Sam accepted my proposal and will be paying my salary for the next two years.
In Conclusion, Dr. Strangelove
The title of this post is inspired by one of my advisor's favorite movies. And just like a doomsday device, the value of a scientific project is lost if you don't tell the world! Check back here for more updates about the progress of the bovine genome reassembly.
*Finally, two disclaimers. First, I don't consider myself "Doctor Bovine Genome", I simply needed a catchy title. Second, I don't know of any similarities between myself and Dr. Strangelove. If you know of any, feel free to leave them in the comments section. Enjoy!
All bulls purchased after February 1st, 2019 for use as natural service sires in the Show-Me-Select Replacement Heifer Program ™ must be DNA tested to have genomic-enhanced EPDs. All bulls used as natural service sires after February 1st, 2020 must have genomic-enhanced EPDs, regardless of when they were purchased. Seedstock producers classifying bulls as Show-Me-Select qualified in sale books must have genomic-enhanced EPDs on those lots. Bulls purchased prior to February 1st, 2019 will be grandfathered into the program, as is the common practice with all natural service sires. However, this grandfather grace period will end February 1st, 2020. At that time for a bull to qualify for use in the program, it must have genomic-enhanced EPDs. Why the change? The Show-Me-Select Replacement Heifer Program has the goal of producing premium heifers that perform predictably as 2 year olds. The program has a history of requiring Show-Me-Select producers to go beyond typical cat
On December 3rd, Harly Durbin, a PhD student in my group, successfully defended her PhD dissertation. You can watch a video of her public seminar, in which she discusses hair shedding and genotype-by-environment interactions for growth. Congratulations Harly!
The University of Missouri is recruiting 2,500 Hereford heifers and 2,500 Red Angus heifers to participate in a heifer puberty and fertility genomic research project. Heifers should be registered Hereford, registered Red Angus, or commercial Hereford or Red Angus. Hereford x Red Angus crossbred heifers targeted for the Premium Red Baldy Program would also be a good fit for the research project. Producers must be willing to work with a trained veterinarian to collect the following data: ReproductiveTract Scores collected at a pre-breeding exam 30 to 45 days prior to the start of the breeding season. PelvicMeasurements (height and width) collected at the same pre-breeding exam 30 to 45 days prior to the start of the breeding season. Pregnancy Determination Using Ultrasound reporting fetal age in days. Ultrasound will need to occur no later than 90 days after the start of the breeding season. In addition, heifers must have known birth dates and have weights recorded eithe
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