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Archive for Disease Resistance

Genomic Testing – Are You Missing Out?

Thursday, August 21st, 2014

When The Bullvine mentions genomic testing to production oriented breeders, we frequently get the reaction “Oh, that’s just for herds that sell high priced animals. I focus on running a profitable milking operation. I don’t need to spend money on testing my animals.” Well, in fact, that is not an accurate assessment of the benefits available from using this tool at the present time. If you are among those not using genomics, Stop Procrastinating! It is a tool that everyone breeding their herd to improve it genetically should not be without.

Only Very Moderate Uptake – So Far

Currently, there is an 8% uptake of genomic testing of all Holstein heifer calves. The total is less in other breeds. We have barely scratched the surface.  Half a century ago, official milk recording was at the same low level. Today it is recognized as a much-needed toll both on-farm and in the national herd. Obviously the question that breeders need answers to is ‘How will I benefit from genomic testing all my heifer calves?

Known Benefits

Much has been written about benefits and opportunities available to breeders who are submitting samples for DNA testing. Those range from selecting the best mates for your females, … to parentage verification, … to how to manage your heifer herd, … to deciding which heifers to breed and which ones to cull or implant, … to polled or not polled, …to finding the genetic outlier of an individual mating, …to an aid in marketing heifers in sales.

Just recently Holstein USA and Zetas launched an exciting service called Enlight. Breeders that submit their samples to Zoetis can through Holstein USA’s website summarize and analyze their heifers for their genetic qualities. This is the first, and no doubt other breeds will establish similar services in the future. Breeding to get the genetics that work best for you and then managing them in the best way possible is definitely important.

At the industry level, genomic testing has also proven beneficial. Alta Genetics, a few years ago, working with large herds in the USA, parentage verified all young sire daughters. It was a significant step forward in accuracy of sire proofs so they could guarantee their product to their customers. Companies like Zoetis and Neogen initiated genomic testing services so they could help producers and also as complementary to their other products. A.I companies have been able to restrict their young sires sampled to only top genomically evaluated young sires, thereby saving millions for themselves by not sampling the bottom enders and millions for breeders that did not have to raise, calve in and milk the lower genetic merit daughters of the bottom end bulls. All of these benefits are leading to cost savings in the hundreds of millions of dollars.

However six years into using genomics we are only starting to reap the rewards.

Genomics Will Make the Future Brighter

Breeders often mention that they want sires to use and females in their herd that are superior to what is available today for traits that are difficult or impossible to measure. Here are some thoughts and facts that may help breeders to decide to use genomic testing so they can have animals that are even more profitable than their herd is today. It does however require that genomic testing becomes routine (Read more: Why 84% of Dairy Breeders Will Soon Be Using Genomic Sires!).


Investigation, at the farm level, is being done in beef heifers on growth rates, diets tailored to genotype, immunity to common diseases and age at first estrus. The results of those studies will be able to be applied to dairy heifers since little similar research is being conducted for dairy heifers. Already breeders can test for the genetically inferior heifers, so they do not need to be raised. Up to $500 per heifer in rearing cost could be saved by having the retained heifers calving by 22 months of age.  Remember that it is age at first estrus that is important, for which we have very limited farm data. First breeding depends on a breeding actually occurring.  With heifers genotyped and selected for first estrus significant savings will be possible.

Feed Efficiency:

Two major research projects, one in USA and The Netherlands and one in Australia and New Zealand, will identify the cows that are genetically more efficient at converting their feed to milk. Within a couple of years, we can expect to see reports relating genomic information to feed efficiency.  This type of research is costly and not currently practical at the farm level, but using research herds this investigation is well underway. Reducing feed costs by 5-10% through genetic selection would result in many millions in savings. That is likely to be crucial to the dairy cattle breeding industry as dairy competes to feed a hungry world. (Read more: Feed Efficiency: The Money Saver and 15 Strength Sires That Will Still Fit In Your Stalls)


CDCB already makes available the inbreeding level of genomically tested animals based on their genomic results. No doubt further research results will provide numbers associated with inbreeding. Think about it. In the past the inbreeding level for two full sisters, based on pedigree, has been considered the same. However, by using their genomic profiles the level of inbreeding can be much more accurately known for each sister. A recent report from CDN, for the time period 2010 to 2013, shows that inbreeding rates are increasing not decreasing. Even though breeders are aware that inbreeding is a negative to future profit, they continue using fewer sire lines. More in-depth study of presence or absence of genes that negatively affect the viability of our cattle take time. Why do we always expect someone else to take responsibility for the level and rates of inbreeding? (Read more: 6 Steps to Understanding & Managing Inbreeding in Your Herd and Stop Talking About Inbreeding…)

Disease Resistance:

The list is long on diseases that breeders want their animals to be resistant to. Many research projects are underway to relate the genotype to particular types of mastitis, respiratory diseases, wasting diseases and even production limiting diseases like milk fever. CDN and Canadian milk recording agencies have been capturing field data for a number of years now on eight production limiting diseases. In time, the relationships between genetic lines and these diseases will be better-known. So that selection can be carried out to avoid problem bloodlines. When more animals are genomically tested, and bloodlines prone to diseases are identified great steps forward will be able to be made. It takes considerably more than 8% of the population genomically tested to move breeding for disease resistance to reality. (Read more:  Genomics – Opportunity is Knocking)


Failure to get animals to show good heats, to produce good oocytes and conceive when bred is the leading frustration on most dairy farms. The role that genetics plays in that frustration is now receiving attention by many researchers and organizations. In the past, the capturing of useful data to do genetic analysis relative to reproduction has been a significant problem. The relating of genomic results to reproduction holds out considerable hope. Early embryonic death, haplotypes that negatively impact reproduction, genetic difference between animals for cystic ovaries and many more are all areas of concern for breeders. Once again both genomic and on-farm data are needed to move forward. (Read more: 10 things dairies with great reproduction do right and Are Your Genetics Wasting Feed and Labor?)


I hear breeders say “Genomic indexes are just like production indexes.” However, that is not so. There are genomic indexes for production traits, conformation traits and management traits. Genomics is a dynamic science. It is best if breeders know not only the genomic values for the animals currently in their herds but also their ancestors. To build the genomic history for a herd necessitates that testing start as soon as possible. Genomics is a tool every breeder will benefit from using no matter what their selection goals are. (Read more: Better Decision Making by Using Technology and FACT VS. FANTASY: A Realistic Approach to Sire Selection)

In Another World

Outside the world of dairy cattle but totally related to DNA analysis, there is a study just under way in the United Kingdom, where 100,000 people with cancer or rare diseases are being genotyped to better understand people’s ability to avoid or resist cancer and disease. One of the terms used in the news release was that before there was DNA profiling this work would not have been possible. Relating that back to dairy cattle, if we do not have the DNA information for animals we will be limited in our ability to eliminate deleterious genes from our cattle.

Will Genomic Testing Pay?

The question for breeders appears to have been one of cost – benefit. “What will I get for the fifty dollar cost of doing a low-density test?”  The fact is that, to date, milk producers have not taken the opportunity for more rapid genetic advancement by testing all their heifers. However, the tide is about to change. With new information coming out almost weekly on how the genetic (aka genomic) make-up of an animal relates to profitability, breeders without genomic information on their herd will not be in a position to know which sires to use or how to manage or feed their animals. Genomic testing needs to be viewed as an investment rather than a cost. Invest $50 shortly after birth to save hundreds over the cow’s lifetime.

The Bullvine Bottom Line

Every journey requires that a first step be taken. The first step is that breeders submit samples for DNA analysis. Every breeder will benefit by knowing the genomics of their herd. No doubt the cost of testing will come down as more breeders participate.  Future success in dairying will require genomic testing, just as current success depends on capturing and using performance information. Are you prepared for using genomic information to assist in creating your future success in dairying?

The Dairy Breeders No BS Guide to Genomics


Not sure what all this hype about genomics is all about?

Want to learn what it is and what it means to your breeding program?

Download this free guide.





Genomics – Opportunity is Knocking

Thursday, November 28th, 2013

With less than a week until the December 03 index release day I am thinking what more do I want or need to learn about genomics in the world of dairy cattle breeding. I have friends that entirely use genomic information to breed and market while others are riding along and using higher indexing young sires but otherwise remain in the prove it to me “I am from Missouri camp”.  Here at The Bullvine we have provided thoughts in the past on genomics (Read more: Genomics at Work – August 2013). Today we decided to further document some areas that we feel are important to watch for and questions we are searching for answers to so that you don’t miss this opportunity.


“Does it really work?” is the question most often asked. The verdict is still out for many breeders. (Read more: Is the Genomic System Really Working?, The Truth About Genomic Indexes – “show me” that they work! And What Happens If Genomics Doesn’t Work?)

Except for a few preliminary reports by a couple genetic evaluation centers little has been published verifying that using genomics actually works. Breeders need the truth and nothing but the truth based on scientific analysis. We can likely expect the report to say that it assists with increasing the rate of genetic advancement but that: i) on an individual animal basis it is not as accurate as a 99% reliable daughter proven A.I. bull;  ii) for young bulls, heifers and cows it increases the accuracy of indexes ; iii) for traits for which we have limited farm data it is still too early to make  an accurate assessment; and iv) it is in fact the most important step forward in breeding since we got broadly based proven sires.  The message to our scientist and industry leaders is that breeders need to know the facts. The industry depends on breeders being successful. (Read more: CANADIAN BULL PROOFS – You’ve Got to Prove It to Use It!)

With the indexes of young animals today exceeding their older counterparts by a significant amount, breeders need to know the facts so they can decide on the extent to which they should use genomic information in their breeding plan (Read more: What’s the plan?).

Intensity of Use

It is well known that concern exists among all players, from breeders to scientists, on the increased rate of inbreeding.  (Read more: Twenty Things Every Dairy Breeder Should Know About Inbreeding, 6 Steps to Understanding & Managing Inbreeding in Your Herd and INBREEDING: Does Genomics Affect the Balancing Act?)

A study of the sires of top ranking young animals shows the following:

  • Sires of top fifty August 2013 gTPI young bulls – Mogul (21); Uno (8); Supersire (7); McCutchen (3); Facebook (2); Lithium (2), seven others
  • Sires of top fifty August 2013 NM$ young bulls – Mogul (13); Supersire (10); Uno (8); Robust (3); Shamrock (3); Epic (3); Lithium (2); Facebook (2); six others.
  • Sires of top fifty August 2013 gLPI young bulls – Mogul (17); Supersire (9), McCutchen (5); Bookem (5); Mixer (3); Epic (2); Lexor (2); Iota (2); five others.
  • Sires of top fifty gLPI heifers (Sept-Nov releases) – Supersire (11); McCutchen (6); Enforcer (5); Mogul (5); Liquid Gold (4); Munition (4); Morgan (3); Cashmoney (2); ten others

Even though most of these bulls are not themselves closely related it is concerning that only a few bulls come to the top on all these lists. 66% of the above lists are over 6.0% inbred and only one is below 5.0% inbred. Outcross sires (Read more: 12 Sires to Use in Order to Reduce Inbreeding and GOING OFF THE MAP: 14 Outcross Holstein Sires That Don’t Include GPS) has been recommended as a solution yet Oman, Planet, Shottle and Bolton are prominent is the ancestry of the bulls above. It is time that we stop worrying about inbreeding and start finding practical solutions. Do we need to designate breeding lines and then doing line crossing like is done in crops, poultry and swine?  Why are A.I. organizations not using alternate sires of sons? Is it that those alternates do not come up as high on total merit index ranking lists? If that is the case should total merit index be the criteria used when selecting young bulls to be sampled or marketed. Should the inbreeding coefficient of every bull be a required number to be published?  There are solutions but it takes effort and leadership to stop the runaway train.

Finding the Best

Breeders of very elite indexing animals want to know which bulls will ring the bell for them when they flush their top virgin heifers. Some of those breeders feel that there are certain sires more capable than others at leaving top of the list progeny? Put another way can two bulls be ranked the same for total merit but one leaves progeny that are very consistent for their genomic values while the other bull produces progeny that range more in value. Breeders are willing to gamble and use the bull that appears to be able to produce list toppers. Breeders are asking the question – have our scientists studied this and is their an answer to the question of why some families consistently throw the high outliers?

Which are the Future Parents

As well with more and more emphasis being given to management, health and fertility traits in dairy cattle selection the question becomes which are the young bulls or elite heifers for the future. Could it be that they should be 90%RK for Production and 99%RK for Durability and 99%Rk for Health & Fertility? Attention needs to be given to matter with a view to the needs for the next ten plus years. (Read more: Total Merit Indexes: Are they helping or hurting?, Does Your Breeding Program Save You Labor? and  Are Your Genetics Wasting Feed and Labor?)

Health / Disease Resistance

No doubt we have only scratched the surface on what the DNA profile of an animal can tell use about an animal’s ability to remain healthy and disease free.  Even though breeders would like to have the answers today, the absence of farm data to match to the DNA will likely mean that this area of breeding will be relatively inaccurate for some time into the future. That does not mean that we should not continue to study this area, it is just that we can not expect answers quickly.

Female Fertility

Here again we are dealing with an area where there is limited farm data, or the farm data is not in connected data bases that can be used to correlate female fertility with DNA profiles. Is there farm data out there that tells us when heifers reach puberty? No. Are there genetic differences in when heifers can be first bred? Likely but we do not know. To go even further what about female conception rates? Biologically up to 90% of the time a sperm fertilizes an egg, yet only 65% of heifers and 40% of cows in Holsteins actually become pregnant. The inability of a fertilized egg to implant is significant but knowing the genetics of that is still a long ways off. Maybe there is research in other species that might be useful for linking female fertility with DNA profiles.

Breeders who flush females know that to be financially successful a cow or heifer must give many viable embryos. And that there are differences amongst cow families in how many embryos produced. (Read more: What Comes First The Chicken Or The Egg? And Investing in Dairy Cattle Genetics – Think Outside the Box) One question yet to be answered is by using IVF on poor flushing families are we, in fact, hindering reproduction from a genetic perspective. Yes more questions than answers but remember that the most common reason for cows being culled is infertility. So we do not need bull dams being genetically inferior for reproduction.


With lameness in dairy cattle being targeted as a big time problem in animal care circles, is it time that a mobility index be produced? Can we take our current DNA profiles and calculate such an index? It matters little that we know a host of traits about feet and legs when breeders are most concerned about a cow or heifer’s ability to move freely and comfortably in the environment is which she lives. (Read more: Cow Mobility: One Step Forward or Two Steps Back?)

Getting with the Program

Perhaps some of our ‘thought list’ will be possible in the next year or two. One thing we know is that for traits to be able to be evaluated we need more animals both recorded for performance and DNA profiled.  Of immediate concern is that without broad based field data for calf and heifer performance we are limited in what we can accurately know about this important cost center.  Any breeders not currently DNA profiling all their heifer calves are denying themselves future opportunities to advance their herds. Cost is frequently given as the reason for not DNA profiling, yet the cost is only about equal to officially milk recording a cow for a year. The information obtained can be used early in life including which heifers to keep, how to manage them and which sires to breed them to.

The Bullvine Bottom Line

Like almost everything else in genetic advancement, genomics does not have all the answers. It does not have 100% accuracy but it sure does shorten the generation interval in dairy cattle breeding.  Opportunity knocks for the breeders that do profile their animals. And every month with new facts coming out on genomics, the opportunity for greater return on investment increases for participating breeders.

The Dairy Breeders No BS Guide to Genomics


Not sure what all this hype about genomics is all about?

Want to learn what it is and what it means to your breeding program?

Download this free guide.






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