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Archive for Genetic Evaluation System

The dairy cattle improvement industry in the United States has recently undergone a major change as it relates to genetic and genomic evaluation services. As with most countries, genetic evaluation services in the United States began as a responsibility and activity of the federal government. More specifically, for several decades now, the Animal Improvement Programs Laboratory (AIPL) of the United States Department of Agriculture (USDA) has received and processed data from various sources across the U.S. into a national system, conducted research on a vast array of important topics, established genetic evaluation systems for many traits and computed routine evaluations for bulls and cows in all dairy cattle breeds that were delivered to the industry organizations and producers. During the course of the past few years, the dairy cattle improvement industry in the  United States has been restructured commencing with the release of the April 2013 genetic evaluations.

New Governance Model for Genetic Evaluation Services

The final steps of a lengthy process of consultation and planning were realized in late 2012 and the first quarter of 2013. Officially, the Council for Dairy Cattle Breeding (CDCB) is now responsible for delivering genetic and genomic evaluation services for all dairy cattle breeds in the United States. Similar to the governance model of Canadian Dairy Network (CDN), the CDCB is led by a Board of Directors that has representation from the national breed associations, the milk recording and data processing centres as well as the A.I. sector. During an initial transition period that may be up to two years in duration, the researchers and staff at USDA-AIPL will assist in the calculation and delivery of genetic evaluation services. The main focus for USDA-AIPL into the future will be continued research and development in support of the national genetic evaluation services controlled by the industry stakeholders through the CDCB.

Financing U.S. Genetic Evaluation Services

Due to the privatization of genetic evaluation services to the industry, the business plan for the CDCB needed to include a plan for financing such important activities. As a consequence, the Board of Directors of the CDCB approved a fee structure that had two main principles; (a) that fees would be applied to genotyped animals and (b) that the applied fees would consider the degree to which the herd owner or A.I. organization contributes  pedigree and performance data to the national genetic evaluation system. Simply stated, herdbook registered animals in the United States that are milk recorded and type classified already contribute valuable data to
current and future genetic evaluation services relative to foreign animals that may be genotyped within the North American system. Although the CDCB fee structure is rather complex and detailed, the most important fact to Canada is that a fee is now payable for every animal (male or female) for which the Canadian owner wishes to have a genomic evaluation in the United States with its associated GTPI and/or Genomic NM$ (Net Merit). For Canadian breeders, regardless of the breed, Holstein Canada intends to act on their behalf and collect the required fees from those interested in receiving a U.S. genomic evaluation and provide the associated payment to the CDCB. The process for achieving this goal is currently under development at Holstein Canada with completion expected in the near future.

Screening Based on GLPI

In Canada, official genomic evaluations including the GLPI are released by CDN on a monthly basis for all newly genotyped females and Holstein Canada generates a printable genomic evaluation report that is made available electronically to the animal’s owner. For males, the same process is used but the resulting genomic evaluations delivered to the bull owner are unofficial and therefore not presented on the CDN or breed association web sites. Whether it is a genotyped male or female, breeders in Canada will then need to decide if they want to pay for receiving a U.S. genomic evaluation, which would normally arrive the following monthly release. To assist in this decision-making process, CDN and Holstein Canada collaborated in a study to relate GLPI values for Holsteins in Canada to their GTPI value in the United States. The results of this analysis can serve as a means for screening which animals are worthwhile paying to receive a U.S. genomic evaluation including GTPI and Genomic NM$.

Distribution of GTPI versus GLPI for Holstein

Figure 1 is a plot of the GTPI and GLPI values in April 2013 for Canadian Holsteins, which includes nearly 31,000 animals. The correlation of genomic evaluations on each side of the border is 93% so knowing the GLPI of an animal in Canada provides an excellent indicator of the level of its GTPI in the United States. For example, if an animal has a GLPI of 2800, then following that line up in the graph will show that it crosses the solid dark line very close to 2000 on the GTPI scale, which means they are essentially equivalent on average. The actual data points show, however, that among all animals with 2800 GLPI, the range in their GTPI is slightly broader. In terms of confidence intervals, 90% of the animals will have a GTPI that is within ±150 GTPI points from the predicted level indicated by the dark solid line regardless of their GLPI in Canada. For the example above, this means that 90% of all animals that have a GLPI of 2800 will have a GTPI value between 2150 and 1850 (i.e.: 2000±150).

Another way of analyzing the same data is presented in Table 1, which shows the probability that an animal’s GTPI surpasses specific levels depending on its GLPI value. For example, a heifer or young bull with a GLPI that rounds to 3200, has a 1% chance of reaching a GTPI of 2500 or higher and an 8% chance of surpassing 2400 GTPI. As one considers lower GTPI levels, the probability of reaching it increases to a point where there is a 97% chance that an animal with 3200 GLPI reaches at least 2100 for GTPI and it is essentially certain that they will surpass the 2000 GTPI mark.

profitability of researching specific GTPI levels based on the Animals GLPI using the new 2013 scale-holstein

In United States, there are two main official national indexes for ranking animals, which include the TPI calculated by the USA Holstein Association and Net Merit (NM$) for all breeds, as calculated by USDA-AIPL. Similar to the analysis above done for GTPI, the association between GLPI and Genomic NM$ can also be examined. Figure 1 shows the plot of these values in April 2013 for genotyped Canadian Holsteins, which shows a high correlation of 85%.

distribution of genomic nm$ versus GLPI for holstein
Given the different scale used for Net Merit compared to TPI in Holsteins, Table 2 presents the resulting probabilities associated with reaching specific levels of Genomic NM$ in the United States based on the animal`s GLPI in Canada.

Profitability of researching genomic net merit levels based on animlas glpi using new 2013 scale

Summary

The calculation and delivery of genetic evaluation services in the United States has gone through a significant change with the Council for Dairy Cattle Breeding (CDCB) taking over the responsibility commencing the April 2013 release. This transition away from federal government services also required the establishment of a fee structure, which has been directly linked to the provision of genomic evaluations for dairy cattle males and females, both domestic and foreign. Given the strong association between GLPI and GTPI values, Canadian breeders can screen animals based on their GLPI in order to identify those for which they wish to pay the fees to receive a genomic evaluation in the United States, including GTPI and Genomic NM$.

Canadian LPI Rescaling Explained (April 2013)

Tuesday, April 9th, 2013

Understanding and correctly using genetic indexes is important to breeders who derive a significant portion of their profit from dairy cattle breeding decisions. Major changes in the expression of indexes do not occur frequently but when they do occur it can be a time of confusion and perhaps lack of trust. The Canadian total index, LPI, has been used for over twenty years by Canadian breeders, as well as by breeders from other countries who source genetic material from Canada. When changes occur in the LPI indexing system, as is the case just now in April 2013, it is important that the reasons for the changes and the results be understood and incorporated into breeders’ decision processes.

Why Change?

For some time now the LPI values, especially for Holsteins, have been increasing quickly for all animals but it has been most noticeable for animals that have genomic evaluations. Breeders questioned how these young animals with indexes that are about 65% reliable can be significantly superior to recently proven top end bulls and active cows with their own performance values. As most breeders refer to the absolute LPI number, significant differences between the leaders on the various listings left doubt in accuracy in breeders’ minds. For breeders who think is bottom line terms and do not follow the LPI numbers closely, comment were often heard about the fact that numbers are numbers but it is annual cow profit that pays the bills, expands the business and sends the kids to college. Point being that the LPI difference between animals over-stated the net dollar difference between animals. These questions, comments and concerns were heard loud and clear by the CDN’s Genetic Evaluation Board so it studied the matter and took action.

LPI Scaling

The extreme range (-3500 to +3500) in Canadian Holstein LPI values had many drawbacks. It assigned most older long-lived profitable cows a negative value thereby telling a story that was not true and limiting the saleability of their subsequent generation. It assigned values that indicated significant differences between animals when the actual dollar differences were not that large. And due to the scaling effect for animals at the very top of the breed it gave values far exceeding the actual differences.  This latter point was especially true for bulls and heifers with only parent averages and genomic evaluations.

While studying possible solutions, CDN noted that in other major dairy breeding countries the scale for their total merit index is much much smaller than Canada’s 7000 point range. CDN decided to adopt a publication methodology for the LPI similar to what the TPI™ has used for many years. That involves calculating a value and adding a ‘constant’ to it.

New LPIs

Effective April 09, 2013  the new LPI formula is ½ Previously calculated LPI  + Constant.

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Note that the highest progeny proven sires do not change in value.

currentvsnewlpi

Note that the range in values of Holstein LPIs is now much more similar, although slightly more, than the range for  Holstein TPI™

Sire LPIs

It is important to note that this re-scaling of LPI does not re-rank animals. But it does bring the progeny proven sires and genomically evaluated young bulls much closer in their values.

toplpigenomicsiresdec2012

It is important to remember that LPI is the Canadian system for ranking animals according the weights assigned to the numerous genetic indexes of important for lifetime profit. For Holsteins the weights at 51% Production, 34% Durability and 15% Health and fertility while for Jerseys those weightings are 57%, 33% and 10% respectively. Breeders wanting to place more or less emphasis on the various can calculate their own rankings using  the CDN calculator available at www.cdn.ca or going the Bulvine’s bull listings for alternative ranking systems (Read more: Bullvine Performance Index (BPI) – Top Sires December 2012).

Using Genetic Indexes

Indexes are a very constructive tool to genetically breed better animals for the future. As genetics is less than half of the reasons animal differ in profitability, much depends on breeders to not only produce the animals that will be profitable but also to feed and manage them.  Some suggested ground rules to follow when making sire or heifer selections are:

  • Use LPI, TPI™ or Net Merit are you primary list reduction tool for sires or herd replacements
  • Always check out the index values for the traits important to you (i.e. protein, fat, feet & legs, udders, SCS, fertility,..). Eliminate animals from the list that do not meet your requirements.
  • A quick way to eliminate animals is to use % RK (percentile rank).
  • Animals below 75% RK for any yield or conformation traits will likely leave progeny that reduce your profit.
  • Animals below 60% RK for health and fertility traits will not move your herd ahead for these traits of emerging importance.

The Bullvine Bottom Line

Even though the method of expressing genetic indexes may differ from trait to trait or country to country, it is always important to have a plan on what you want to improve genetically  in your herd and then to select the sires or replacement females that will produce the results. The re-scaling of the LPI values will come closer to the actual dollars amount animals return in their lifetime profit and will more accurately compare older and younger animals. By all means keep your genetics current and on target to your needs. It is best to throw out the semen from low indexing bulls. Buy high ranking genetics. It always pays big dividends.

 

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Data Systems in the Future – Are We Ready?

Wednesday, April 3rd, 2013

Three times in the past two weeks serious dedicated dairy cattle breeders have asked the Bullvine questions that we too have been wondering about.

QUESTION 1: Why do we accept breeders collecting DNA samples but not owner recorded milk weights?

QUESTION 2: Why can’t milk weights from robotic systems be considered for publication purposes?

QUESTION 3: Why don’t milk recording programs take all relevant details about a cow when the milk yield data is captured?

We decided to turn those queries into a think piece so that even more breeder input can be brought into the discussion.

The Reality Is

The current data included in national data bases is based on what was the norm a couple of decades back. As well it is based on the previously accepted fact that only human eyes could determine if a recording was accurate or unbiased.

Times have changed. Today robots milk cows without human oversight. Technology is coming out every year on ways to capture more details that can help in breeding, feeding and managing dairy animals.

It is true that individual owners own their animal’s data. They paid for its capture, but only through having all the data for dairy cows in one or inter-linked data systems will breeders be able to advance their animals as quickly as possible.  No one breeder is an island onto themselves so the approach must be to use and make available all the animal data.

The reality is that it is time to put energy and resources into addressing the needs and possibilities when it comes to the data captured, stored and reported.

Capturing Cow Data

In both robotic and large herds owners do not milk the cows. The computers or cow milkers have no bias towards any one cow. Also systems are being used in some tie stall barns where the RFID tag identifies the cow and the system electronically captures the yield. In these systems the data is captured for each and every milking.

QUESTION 4: Why is that data not available for others to see?

QUESTION 5: What can be more accurate than recording every milking?

Surely we are not prepared to argue that eight to ten single milking observations in a lactation by a third party person is more accurate than every milking captured by the milking system.

Canada found twenty years ago that owner recorded milk weights and collected milk samples were accurate enough for sire proving purposes. Data that is 95% accurate is much superior to no data at all.

In the foreseeable future there will be parlour systems that can instantaneously provide readings for butterfat %, protein %, SCS, milk temperature and hormone levels and we expect in time readings for fat composition, protein composition and a host of other readings. Wow won’t that be useful information to use to breed, feed and manage?

Question 6: Will this further information be moved off the farm into the national data system?

Just last week it was reported at the Progressive Dairy Operators Conference that RFID ear tags may have use for measuring temperature and ear movement to monitor heats in tie stall barns. That is interesting.

Data Starts Early

Calves are to be identified at birth with RFID tags.

Question 7: Why is it not possible to use technology that now exists to collect a piece of the ear tissue for DNA analysis?

That way every animal would have a DNA profile at birth. With the very interesting things we are learning on DNA profiles and heifer management, we have just scratched the surface of this crystal ball.

Calves are now being fed by computers from day three or four of age. There will potentially be a very useful data set there that can be of great benefit when determining genetic merit, feeding programs and management practices.

Let’s Dream the Possible Dream

But it does not end there! Many other details and data sets exist that are not part of the national data base but that can be useful for animal traceability, food safety (mastitis and other drug treatment), foot care, reproduction, production limiting diseases (i.e. Johnes), pedometers, rumen boluses (i.e. temperature),… and the list goes on.

Question 8: Are plans being made to link all dairy cattle data bases?

But Is It Official?

In the past, if a piece of information could not be authenticated then it could not be published.  In the future, every farm using genetics to advance their animals will, out of necessity, need to capture and use more data than they have ever had to in the past. Official and unofficial applied when breeders were or were not prepared to trust the method of data capture.

In today’s world there are many systems of marketing and commerce that are monitored as necessary but without a third party observing every event. Breeders are routinely putting on Facebook events about their cows, including their milk yields, an animal’s profit per day, flushing history and ability to come into heat when milking 120 pounds per day. The world of dairy cow information is changing and changing quickly.

QUESTION 9:  What does the current “official” actually mean in the bigger future scheme of things?

The Bullvine Bottom Line

THE ALMOST FINAL ANSWER: Future data standards will need to address that more information will be needed and that data must be universally available. Breeder input is needed now to guide the development of future standards for data captured, stored and reported.

 

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Representatives from the U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS) and Council on Dairy Cattle Breeding (CDCB) signed the Nonfunded Cooperative Agreement (NFCA) on March 27. This NFCA allows for the transition of genetic evaluation calculations, maintains the industry cooperator database and focuses USDA-Animal Improvement Programs Laboratory’s (AIPL) mission on research. For 30 months, several dairy industry representatives, including individuals from artificial breeding organizations, dairy breed associations, milk recording organizations, dairy record processing centers, private industry, universities and USDA-ARS, collaborated to create this agreement that addresses the future of dairy cattle genetic evaluations and management benchmarks.

For its new role, CDCB retained an interim team with extensive dairy cattle genetic evaluation experience. Duane Norman, retired AIPL research leader, will lead the team and Leigh Walton, a long-time AIPL data analyst, will manage the information technology. This team will work in cooperation with current AIPL staff to produce the April 2013 genetic evaluations and release genomic information. This is part of the 24-month transition plan outlined in the NFCA.

Beginning with the April 2013 dairy cattle genetic evaluations, genomic evaluations may be obtained on bovine males and females. CDCB announced its fee schedule (available at: www.cdcb.us), which will be collected as part of the genotyping testing costs, with fee revenue being used to help offset costs related to producing genetic evaluations, maintaining the database and providing management benchmarks.

Founded in 1986, the Council on Dairy Cattle Breeding is a broad-based and multiple-entity organization that formalized in 1999 with articles of incorporation. CDCB strives to ensure quality dairy cattle data, which are available for scientifically validated genetic and genomic evaluations.

For further information, contact Duane Norman at duane.norman@cdcb.us; CDCB Chair Ole Meland at omeland@accelgen.com; or CDCB Vice Chair Jay Mattison at jmattison@dhia.org.

The fee schedule for genomic evaluations was released March 22 by the Council on Dairy Cattle Breeding (CDCB), which has taken over the task of providing genetic evaluations from the Animal Improvement Programs Laboratory, USDA.CDCB fees are charged in addition to the initial cost of animal genotyping and cover the ongoing expenses of calculating and distributing monthly genomic evaluations and official summaries published three times each year, in April, August and December. Fees are determined by the DHI herd code or country of origin, and are lowest for owners providing the most data or information of greatest value to the CDCB Cooperator Database.

All owners will pay genomic evaluation fees for genotyped bulls. An additional fee will not be assessed for the majority of genotyped females.All required female fees and initial male fees will be collected by the nominator (the American Jersey Cattle Association is an approved nominator). These fees are charged only for the first genotype submitted for each animal.For the initial fee, genotyped U.S. males will receive a genomic evaluation monthly, but will not be on any lists past 15 months of age unless the A.I. service fee is paid. Foreign genotyped males will receive evaluations monthly up through 15 months of age, after which the A.I. service fee must be paid to obtain additional genomic predictions.

CDCB fee schedule for Genomic Evaluation
Additional rules apply to obtaining genomic predictions for bulls from which semen is collected and used. For complete fee schedule and details, visit the Council on Dairy Cattle Breeding website, Genotyping services available through the American Jersey Cattle Association include:

• the low-density GGP 8K test, priced at $38 per animal in REAP herds and $48 per animal for all others, plus required female fee or initial male fee;

• the GGP 80K test, successor to the 50K chip, for $100 per animal in REAP herds and $115 per animal for all others, plus required female fee or initial male fee; and

• optional add-on tests for BVD-PI, horned/polled gene, and casein A2, fees determined by when tests are requested and processed.

Order genotyping services by calling 614/322-4482, by email, or online. Please note: Online ordering is not available for male genotyping.

Cow Mobility: One Step Forward or Two Steps Back?

Wednesday, March 27th, 2013

The udder may be a cow’s most prized physical asset, but her feet and legs literally provide the support for everything she does. How many situations with problem cows boil down to problems with their feet and legs?

In most herds foot care and hoof trimming are considered to be a very necessary event and, therefore, an expense that cannot be avoided. With this absolute in mind, we tend to march on breeding, feeding and managing cows without taking the time to consider ways to stop merely treating the symptoms we`re stuck with. Solving the problem before it becomes a health or management problem could completely avoid starting our animals off on the wrong foot. The Bullvine invites you to consider the genetics of feet and legs with us to stimulate a breeding solution for these issues.

The Heels of a Dilemma

In milk recorded herds, culling cows for feet and leg problems is #1 on the list of conformation culling reasons. In the past, udder breakdown was once the leader. However breeders have placed sufficient emphasis on improving udders that we are now to the stage where milk producers are saying they do not need to select bulls for udder traits except to avoid ones that are too deep.  It’s encouraging to know that with focus and time identified problems can be solved.

Although removal of horns may be the current hot button for people concerned about the welfare of animals, and therefore breeders are selecting for polled, there are numerous reports predicting that lame cows will be the next and much larger target.

Certainly, there are no dairypersons who are saying that feet and legs are good enough that genetic improvement for feet and legs is not needed.

Locomotion is Costing Us an Arm and a Leg

Reports show that for a cow with one temporary sore foot it reduces her annual profit by at least $100.  So what is the cost of a cow with foot construction that requires trimming 3-5 times per year, medication, less milk production, milk withdrawal, extended calving interval and premature culling? Feet and leg problems could be costing some herds $300 per cow per year.  On a one hundred cow herd that is $30,000 less profit. Significant by anyone’s standard.

A Vet Looks at the Genetics of Lameness

Gordon Atkins, DVM and a member of Holstein Canada’s Type Classification Advisory Committee, was a speaker at the recent annual meeting of the Wisconsin Holstein Association. He is not prepared to accept the fact that feet and leg heritabilities are as low as they currently appear to be.  Additionally, he shared some interesting facts about feet and legs:

  • Lameness is 88% a rear foot situation
  • That leaves only 12% for it being a front feet and leg problem
  • The outside rear claws bear the brunt of the lameness issue
  • The fact is that the rear outside claw grows faster because it is growing tissue in response to the greater pressure it endures while walking
  • Thin cows have a higher incidence of lameness
  • Thin cows mobilized fat from their bodies including the fat from the foot pad or digital cushion within the base of the heel structure. This results in less protection for the foot and heel.
  • The foot’s fatty pad can be replaced as the cow regains body condition but over time scar tissue will form when adequate fat is not present in the pads

Dr Atkins went on to highlight

  • His very telling statement followed, that being, “we need to evaluate feet and legs better”

 

Diagram – cross section of the foot

Diagram – Cross Section of a Bovine Foot

Let`s Go Toe to Toe with the Facts Only Please

Let’s summarize:

  • Dairy cattle have a genetic problem relative to feet and legs especially for animals not allowed to get off cement or to exercise
  • It is rear feet that are the major portion of the problem with respect to lameness

The Achilles Heel for Classifiers

The classification system scores numerous traits but there are factors in the area of feet and legs that are beyond their control.  Foot angle is not a good trait to measure because it is so variable due to foot trimming. Cattle owners have feet trimmed before classification so type classifiers do not see the animals in their natural state.  Classifiers do the best they can, given the circumstances. Add to this the fact that classifiers do not see every cow walking. Since the ability to walk is what is most important, classifiers again are at a distinct disadvantage.

Estimating heritability using classification data shows these percentages:

  • 30% for bone quality (moderate)
  • 24% for rear legs side view (moderate)
  • 13% for rear legs rear view (low)
  • 11% for foot angle (low)
  • 8% for heel depth (low)

Yes the report card is in – we need to improve the evaluation feet and legs especially for rear feet and rear legs rear view. Genetically we have bred for thin cows and thus less fat in the foot pad. The only place we collect feet and leg data for genetic purposes is in the type classification programs and there the classifier, as mentioned, is at a disadvantage. What’s left that breeds, classifiers, people doing the genetic evaluations and breeders can do?

Getting a Toehold on the Solution

A collective approach is needed:

  1. We must admit that we have a problem and that we need to find a solution to more accurately knowing the genetics of feet and legs.
  2. The problem is not limited to one country and it is more prevalent in cattle not allowed to walk on natural surfaces.
  3. Resources (people and money) must be allocated to investigation and research.

Some suggestions the Bullvine has heard on ideas to consider include:

  • observe or measure the females over their lifetime
  • evaluate the feet on calves at weaning
  • evaluate the feet on heifers at first breeding
  • measure the feet on first lactation females on their first milk recording test day (before they are trimmed)
  • compare sire’s daughter feet and legs on confined versus pastured daughters
  • compare the genomic profiles of cow families that are both desirable and undesirable for feet (and legs)

It is encouraging to see that there is one hoof trimmers’ guild that has public support for a study to collect pedigree information at the time of trimming, to complete a report of the condition of the feet before trimming and then to have the data analyzed. That could be a start.

In the Interim… Feet Forward

Research takes time and cows are bred every day, in the mean time, breeders must use the information currently available from sire indexes or proofs. It is strongly recommended that sires be highly ranked for Net Merit, TPI or LPI and higher than 1.5 FLC or +7 Feet & Legs. A recent addition to the information to consider on bulls is their Body Condition Scoring index. Bulls whose daughters do not get as thin during lactation should not drain all the fat from their foot pads.  (Some Bullvine recommended sires to use can be found at From Fantasy To Reality – Top Sires To Address Herd Culling Problems)

The Bullvine Bottom Line- “Stop “Digging in Our Heels”

What is needed is an international approach to studying dairy cattle feet, much like the approach being taken to studying feed efficiency.  Hopefully a way will be found to move feet research in dairy cattle to the DNA level. If the industry collectively has the will, there will be a way. All we need now is a champion to take the first step.

 

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Insemination data provided to CDN by the major A.I. organizations in Canada and Canadian DHI partners since 2001 was recently analyzed.  Here are the trends in market share for Holstein bulls by age.

Trend in Sire Usage by Age Category at Insemination

Trend in Sire Usage by Age Category at Insemination

Trend in AI Sire Usage by Age at Insemination

Source: Canadian Dairy Network

logo_cdn2_0[2]After more than twenty years with the Lifetime Profit Index (LPI) as Canada’s national genetic selection index, Canadian Dairy Network (CDN) has decided to adjust the scale of expression for all dairy breeds in conjunction with the April 2013 genetic evaluation release. The CDN Board of Directors took this action following more than a year of consultation with the various breed associations and industry partners. The April 2013 implementation of the revised LPI scale of expression also includes an update of the standard deviation values for fat and protein yields in the formula in addition to the annual genetic base adjustments.

New LPI Scale

Since its beginning in 1991, the Lifetime Profit Index (LPI) has helped breeders and A.I. organizations rank bulls, cows and heifers to optimize selection and mating decisions, which translates to high rates of genetic progress for traits of importance. Effective April 2013, the scale for LPI values in each dairy breed will be half of what it has been. In order to maintain the level of LPI for the highest progeny proven bulls, a “constant” will be added to the formula For the Holstein breed, the “constant” will be 1700 points as presented in Table 1, which includes all breeds. This change in scale has no impact on how animals in each breed rank although reducing the range will create more animals tied at some LPI values.

Table 1: LPI “Constant” by Breed and its Partitioning Across Components

cdnchart1

Why Change the LPI Scale?

Figure 1 graphically shows the impact of this change in the scale of expression for LPI in Holsteins. LPI values for progeny proven Holstein sires have exceeded the range from -3000 to +3000 points in recent years. This is expected when the scale has an average near zero and the standard deviation is approximately 750 LPI points since the most extreme values would normally be four standard deviations above and below the average (4 x 750 = 3000). This very wide range is unique to Canada and the national selection index in most countries is expressed on a much narrower scale. For example, compared to 750 LPI points in Canada, the standard deviation for TPI in the United States is 235 points and most European countries use a scale with a standard deviation of less than 100 points.

Adding a “constant” in the formula establishes the average value among progeny proven sires. This concept is similar to the approach used in the TPI formula for years, which currently includes a constant value of 1832. The use of 1700 for Holsteins in April 2013 will translate to a higher “constant” once the genetic base in Canada is adjusted in April 2014, which will allow for a direct comparison of LPI values over time within each breed.

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From a producer perspective, there is another major reason why CDN decided to halve the scale of LPI values in each breed while maintaining the level of the highest progeny proven sires. Such a change to the LPI scale of expression essentially eliminates negative values, which has been a major concern expressed by breeders regarding LPI values for older cows in their herd that have been very profitable during their lifetime. At the other end of the scale, the new LPI scale will reduce the perceived superiority of genomic young sires compared to progeny proven bulls as well as the top heifers compared to elite cows.

Interpretation of LPI

LPI values do not have a specific unit of expression and the main purpose is to rank bulls, cows and heifers according to the genetic selection strategy in each breed. Animals with a higher LPI are expected to produce progeny that will be more profitable over their lifetime, relative to lower ranking animals. This concept of superiority remains unchanged with the new scale of expression for LPI values in Canada. Based on a CDN study for Holsteins conducted in 2006, every 100-point difference in the average LPI at the herd level translated to an increase of $50 in profit per cow per year, which accumulates from year to year. With the new LPI scale effective
April 2013, this result makes interpretation even easier for Holsteins. Every point increase in the average LPI of a herd now translates to a parallel increase of one dollar profit per cow per year for the lifetime of the daughter.

Updating Production Standard Deviations

Within the LPI formula, the genetic evaluations for each trait must first be adjusted to a common scale of expression. This is achieved by dividing the evaluations for each trait by the appropriate standard deviation, which makes the evaluations for all traits directly comparable and ensures the desired weight is applied to each trait included in the formula. Over the course of time, CDN geneticists have seen a change in the standard deviation of production proofs within each breed. The rescaling of LPI values in each breed also provides CDN with the opportunity to update the standard deviations for production traits, as presented in Table 2. Other than Milk Yield, the revised standard deviations for these traits affect the LPI formula in each breed.

cdnchart3

Summary

Effective April 2013, the scale for expressing LPI values in each breed is halved compared to the previous range. Top progeny proven sires maintain their LPI level while the highest young genomic bulls and heifers experience some reduction. Older cows with negative LPI values move up such that essentially all animals in each breed receive positive LPI values. Previous studies relating LPI to profit of daughters remain relevant with the new LPI scale of expression until CDN conducts an updated analysis in the near future.

Author: Brian Van Doormaal, CDN
Date: March 2013fSource: Canadian Dairy Network

The Bullvine is often asked, “How can using genomic sires be better, if the genomic sire’s reliabilities are not as high as those for proven sires?” So in typical Bullvine style we set out to answer that question.  The following is our answer…

Single Trait – Fat

Bullvine wanted to keep this comparison as simple as possible.  To do this we used one trait, in this case fat yield, knowing that breeders do not select for one trait only. The results apply to all traits.

Females in Your Barn

You have a virgin heifer and a seven year old cow that are both indexed at 100 kgs for fat yield.  Both have been genomically tested and the cow is milking in her fourth lactation.  The heifer’s index is 67% Rel.  and the cow is 82% Rel.

TABLE 1: Females

Born Fat Index % Rel Regressed Fat Index
Heifer 2012 Jan 10 100 67 67
Cow 2005 Jan 16 100 82 82

 

Sires

Three sires you might consider using for breeding these females could be:

TABLE 2: Sires

Born Fat Index (kgs) % Rel Regressed Fat Index
Oman March 08, 1998 82 99 81
Supersire Dec 28, 2010 116 67 78
Pride January 27, 2012 135 69 93

 

Index of Calves

What will be the fat indexes for the resulting calves? (Add parents together and divide by two)

TABLE 3: Regressed Fat Indexes for Calves (kgs)

DAMS SIRES
OMAN SUPERSIRE PRIDE
Heifer 74 72.5 80
Cow 81.5 80 87.5

These values are the expected average fat indexes.  And, yes, there will be less variation amongst the progeny for Oman and the cow.  The most variability amongst the progeny can be expected for the heifer when mated to Supersire or Pride.

Therefore, the short answer for which bull to use, is Pride. Pride will maximize the calf’s fat yield index.

Rate of Genetic Gain

Determining genetic gain is a principle taught to all college genetic students.  The formula is:

Let’s simplify this:

Accuracy                              =             Reliability

Selection Intensity          =             Determined by where the animal ranks in the population (all these animals are in the top 1% of the population so their selection intensity is identical)

Genetic Variation             =             Standard Deviation of fat yield indexes (common for all the animals in the example)

Generation Interval        =             The average time between the birth of the parents and the birth of the calf.

Generation Interval is the place where the numbers for the heifer and the sires, Supersire and Pride, are much smaller (in years) than those for the cow and Oman.

TABLE 4: Generation Interval (years)

DAMS SIRES
OMAN SUPERSIRE PRIDE
Heifer 8.5 2.5 2.0
Cow 11.5 5.5 5.0

Since the numbers for fat index in TABLE 3 are all similar, dividing them by a larger vs. a smaller generation interval greatly affects the outcome for genetic gain.

For the cow and Oman dividing 81.5 (Fat Index) by 11.5 (Generation Interval) gives a much smaller gain than for the heifer and Pride (80 divided by 2.0).  In fact it is much different 7.9 compared to 40.

That’s the reason turning generations more quickly, using genomics, gives the faster rates of annual genetic gain. (Read more: The Genomic Advancement Race – The Battle for Genetic Supremacy)

The Bullvine Bottomline

Genomics gives you more speed.  No question.  If you’re worried about speed being dangerous, spread the risk by using multiple (not one) high indexing genomic sires where you might have only used one or two proven sires in the past.

 

 

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No one likes paying upfront fees for anything.  After all, what’s the point of paying for something you haven’t received yet?  But there are some situations where paying upfront totally makes sense. Getting genetic information is one of those times.  You give up your money first and it translates into rewards later.

The Pieces are Put Together to Pull Together

Twenty years ago in Canada the dairy industry was faced with a challenge.  Government said it would fund research and development but not genetic evaluation services.  The goal was to shrink the cost and size of government.  The industry said these reports are valuable so we are going to have to get involved and that is what happened.

logo_cdn2_0[2]Canadian Dairy Network (CDN) was established in May 1995.  General Manager, Brian Van Doormaal, has been with CDN since its inception and summarizes the general details. “CDN is governed by a Board of Directors that primarily consists of breeders who are elected as representatives from four categories of member organizations, namely Breed Associations, DHI Agencies, A.I. organizations and Dairy Farmers of Canada.

The Canadian Dairy Network provides five major services:

  • Genetic Evaluation Services
  • Research and Development Projects
  • Industry Standards
  • Maintains the National Dairy Data Base
  • Operates the Data Exchange amongst the industry partners

It`s Fully Integrated and Always Moving

In the simplest terms, all the relevant information is shared by those who contribute.  Examples are:  Breed pedigrees go to CDN; CDN shares them with everyone who is a partner; DHI records go to CDN and are shared with partners.  These and more types of information are available to all users at all times via the Internet.  Everything can be found at the CDN website AT NO CHARGE for lookups.

The Dollar Division

Van Doormaal updates the funding process behind CDN. “All activities of CDN are financed by the industry organizations that are its members and for this reason the CDN Board of Directors has established an equitable service fee structure.” He further breaks out the pay structure. “80% is paid by AI and 20% by breed associations and milk recording provide their information at no charge to CDN.”

FEES: Fearsome Hurdle or Forward Thinking?

When there is a 79% cost increase (effective April 2013), there are going to be questions. Namely, “How did CDN determine the cost of $7500 to prove a bull in Canada?”  Previously the fee was $4200. The same fee has been set on a per bull basis for privately owned genotyped bulls, starting April 2013.  CDN does not have any other fees so this is an all-inclusive rate that gives the bull owners access to various services associated with genetic and genomic evaluations.”

Van Doormaal further clarifies. “With the arrival of genomic evaluations in 2009, operational costs have risen due to increased staffing needs and computer power while the number of young bulls with semen released in Canada each year has almost halved.”  Obviously, the plan is three-fold:  provide more research; more development and, at the same time, cover costs into the future.

Everybody Pays!

Van Doormaal stresses that, “In one way or another, all people and organizations will be paying fees to receive genetic and genomic evaluation services from CDN for bulls. While the mechanism for paying differs for breeders compared to A.I. organizations that are members of CDN, the level of payment is equivalent.  On the female side, no fees are applied on an animal basis since the breed associations contribute to funding CDN activities on behalf of their members.”

Brian Van Doormaal, CDN Speaking at the 2012 China-Canada Dairy Conference

Brian Van Doormaal, CDN
Speaking at the 2012 China-Canada Dairy Conference

What’s Up in Other Countries?

Van Doormaal knows the international scene and explains, “While there are other countries like Canada for which the genetic evaluation services are financed completely by industry stakeholders, as opposed to government, each country inevitably ends up with its own funding formula and mechanism.” He speaks of the American situation.  “In the US, the mechanism proposed for financing its genetic and genomic evaluation services includes some level of fee applied to every male and female for which a genomic evaluation is to be calculated.”

Proving Your Own Bull

When asked about advice for breeders looking to prove their own sires, Van Doormaal urges. “Genotyping young bull calves shortly after birth makes as much sense for breeders as the genotyping of their newborn heifers.  Once the genomic evaluations are available to the breeder, better decisions can be made about the bull’s future.  Owners (AI or breeders) of bulls with outstanding results can then pay the CDN fee to make results official and have the young bull ranked among others available in Canada.”

LPI Formula Changing

Van Doormaal reports “The LPI for Holsteins in Canada currently has a range in values of approximately -3000 to +3000, which is three times bigger than the TPI in the United States and over 50 times bigger than national indexes used in most other countries.

The CDN Board of Directors decided, after consulting all stakeholders, that the LPI scale should be halved.  To achieve this objective while maintaining the current level of LPI values for the highest progeny proven bulls, it was decided to add a “constant” value to the LPI formula in a manner similar to what the United States has done for years with its TPI formula. Conversion from current LPI values to the proposed new scale is simply done by dividing the current LPI in half and then adding the constant of 1700.”

LPI Formula Give and Take

Another adjustment Van Doormaal expects to happen to the LPI formula relates to the specific traits included and the relative emphasis placed on each.  Analysis of various options and discussion will proceed through 2013 with a likely implementation of an updated formula in April 2014. Based on feedback received from a cross-section of breeders, there seems to be a general interest to increase the overall emphasis on longevity, fertility and disease resistance in the formula. Of course, once the emphasis is increased on some traits, there also has to be other traits losing emphasis.

Future CDN Genetic Evaluation Evolution

In December 2012, CDN introduced Body Condition Score as a newly evaluated trait for all breeds, which can be used as an indicator for fertility, disease resistance and longevity.  The release in December 2013 will include the first official genetic evaluations for Mastitis Resistance in all breeds which should be followed by Resistance to Metabolic Disorders in 2014.  Other traits on the planning horizon within the next five years include desirable fatty acids and other components of milk, hoof health and feed efficiency.

Changing Gears for Genomics

Van Doormaal provides updates resulting from the introduction of Genomics. “Prior to 2009, CDN had six different genetic evaluation systems, which were run monthly to evaluate over 60 traits including production, type, longevity, female fertility, calving performance and milking speed/temperament. With the arrival of genomics, a new system was developed and implemented, which estimates Direct Genomic Values (DGVs) for all traits and combines them with traditional evaluations to produce the published genomic evaluations.  This new system is also run monthly and also required the establishment of a national database to process and store all genotypes, which now totals over 310,000 across all breeds. Operationally, these new services that are highly valued by the industry organizations and breeders, have required additional geneticists and new web site development as well as investments in advanced computer equipment and processing power.”

CDN: Providing Global Genetics and Genomics

Looking to the future, Van Doormaal gives an overview. “The era of genomics is still in its embryonic stages.  It is difficult to predict the extent to which it will continue to impact the dairy cattle industry over the next 10 or 20 years.  One thing for certain is that the world of genetics will continue to shrink at an increasing rate since it is so easy to collect DNA from any animal in the world and assess its genomic evaluation on numerous country scales.”

CDN:  Fine-Tuning

CDN will dedicate much time and effort in the coming years to fine-tuning existing traditional genetic evaluation systems and methods for estimating genomic evaluations. Van Doormaal is realistic about the possibilities. “The shift towards a higher market share held by genomic young sires compared to progeny proven sires will likely experience some pendulum swings, eventually reaching stabilized proportions as breeders and industry gain experience in the coming year.”

After 25 years working and educating in the Canadian proving system, Van Doormaal is proud of the achievements. “We are fortunate in Canada to have many geneticists and research scientists who realize that the ‘practice’ of genetic selection and mating is not the same as the ‘science’.  Both sides need to continue to respect and listen to the knowledge and experience of the other. The most progress is made by incorporating the ‘science’ of genetic improvement into a solid, practical breeding program.”

BULLVINE BOTTOM LINE:

Recognizing the potential of responding to changes in the industry, in technology and from science, CDN is focused on the future on behalf of breeders.

 

 

 

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logo_cdn2_0[1]On Thursday, December 20, 2012, the Canadian Dairy Network (CDN) Board of Directors met at the Four Points by Sheraton Hotel near the Toronto airport. The following is a summary of recommendations and decisions stemming from that meeting.

  • The CDN Board of Directors approved the minutes of its meetings held in conjunction with the 2012 Industry Forum and accepted the minutes of the 17th Annual General Meeting for circulation to the members and delegates. As follow-up to those meetings, CDN management will implement the new service fee structure for genotyped privately owned males and provide extension information required for proper communication to Canadian breeders. An important detail associated with this new service structure is that all males must be registered in the breed association herdbook and genotyped with the 50K panel (or equivalent) prior to CDN releasing any genomic evaluation, whether the DNA was submitted by the bull owner or an A.I. organization.
  • In addition to the new policies at CDN due to the open access to male genomic evaluations starting April 2013, the CDN Board also received a thorough update on the status of discussions in the United States relative to the transition of responsibilities for dairy cattle genetic evaluations from the federal government (USDA) to the Council for Dairy Cattle Breeding (CDCB), expected to be official by March 2013. This change in service delivery in the United States will mean that additional fees will have to be paid by Canadian breeders and A.I organizations in order to receive a US-based genomic evaluation such as a GTPI.
  • In terms of new initiatives, the Board of Directors commended management for establishing two major agreements for the benefit of the organization and the industry in general. The first is an agreement with Pfizer Canada that provides direct financial support towards the genotyping of up to 2,800 Holstein bulls that already have an official progeny proof and LPI in Canada. The second initiative is an agreement between Holstein UK, Holstein Canada and CDN that provides a full portfolio of genotyping and genomic evaluation services for Holstein in the United Kingdom. In addition, the partners in the North American Genomics Consortium signed an agreement with Viking Genetics in Denmark for the exchange of genotypes for progeny proven Jersey bulls in an effort to increase the size of the reference population for Jersey genomic evaluations in Canada, United States and Denmark.
  • After considering the past GEB recommendations regarding changes to LPI in all breeds, and the lengthy time frame required to finalize and introduce changes to the specific formula per se, the Board of Directors directed management to implement the October 2011 recommendation to halve the scale of LPI in all breeds while maintaining the level for the highest progeny proven bulls, effective as soon as April 2013. CDN will provide parallel listings for the December 2012 genetic evaluation release to each breed association for their respective input on the desired level of LPI to be attained by the highest progeny proven sire.
  • The Board of Directors reviewed and approved the summary of actions and recommendations from the Genetic Evaluation Board meeting held in October 2012, including various enhancements effective the December 2012 release. These include an improved method for imputation of low density genotypes, a modified procedure for deregressing bull proofs for the estimation of genomic evaluations, a change to create consistency in Reliability values for domestic and MACE evaluations for Indirect Herd Life, the release of the first official genomic evaluations for the Ayrshire breed, the introduction of Body Condition Score as a newly evaluated trait in all breeds, and the separation of Top Heifer by GPA LPI into two lists for those 9 months and older versus calves that are younger than 9 months. A key recommendation discussed in detail and supported by the Board was the importance of conducting research and developing methods to reduce potential biases in genetic and genomic evaluations for bulls not randomly used in Canadian dairy herds, including genomic young sires. Support was also given towards the ongoing research in the areas of mastitis resistance, hoof health and non-return rate semen fertility evaluations.
  • Given the federal government announcement on December 7, 2012 to launch the Growing Forward 2 Programs effective April 1, 2013, the CDN Board of Directors received details related to five projects approved by the DairyGen Council for funding within the Dairy Research Cluster 2 initiative led by Dairy Farmers of Canada. If approved, the industry contribution through CDN of $1 million over five years is eligible for up to $3 million in matching support from AAFC. The Board of Directors approved the proposed projects for funding and also accepted the DairyGen recommendation to support another proposal conditional that it is accepted for matching support by NSERC.
  • The Board reviewed and approved the summary of actions and recommendations from the Industry Standards Committee meeting held in November 2012, which included an updated Terms of Reference document and various topics to be addressed at its next meeting.
  • As done annually, the CDN Board of Directors reviewed the membership and terms associated with members of the Genetic Evaluation Board (GEB), the DairyGen Council and the Industry Standards Committee. It was duly approved by the Board that all qualifying persons whose terms were completed at the end of 2012 would be reappointed for another term starting 2013. Outside of this decision, the Board approved the nomination from Canadian DHI that Ian Rumbles be substituted by Dr. Robert Moore on the DairyGen Council. The approved members of these CDN advisory committees for the year 2013 are appended to this summary with one producer appointment for the GEB yet to be named.
  • The Board of Directors discussed correspondence received from the Canadian Goat Society and agreed to examine options for integrating the dairy goat sector into the structure and services provided by CDN. Management will consult with the key players involved with genetic improvement programs for dairy goats in Canada and prepare a proposal for future presentation to the Board of Directors.
  • Financially, the Board of Directors reviewed the report of revenue and expenses for the 2012 Industry Forum held in Kelowna, British Columbia, which realized a net deficit of $7,151 to be absorbed within the CDN budget. For the current CDN fiscal year, projections after eight months of activity show operational revenue up 0.5 percent and associated expenses down by 2.5 percent from budget. Therefore, the expected bottom line shows a net deficiency of approximately $41,000 instead of the budgeted amount of $80,000. The Proven SireGenotyping Project with Pfizer Canada, which is new to Special Projects for the year, balances $225,000 on both the revenue and expense side. Management presented a preliminary budget for 2013-2014 that includes the new service fee structure for genotyped bulls that are privately owned. The CDN Board agreed to aim for a neutral budget in terms of operational revenue and expenses, both estimated at nearly $1.75M after allowing for growth in staff numbers.
  • As the co-host for the 2013 Dairy Cattle Improvement Industry Forum, CIAQ announced that it will be take place at the Manoir Richelieu in Charlevoix, Quebec from September 16-18, 2013.
  • The next CDN Board of Directors meetings will be held as follows:
    • Friday, March 22, 2013 at the Delta Hotel in Guelph, Ontario,
    • Wednesday, May 22, 2013 at Dairy Farmers of Canada, Montreal, Quebec
    • Monday, September 16, 2013 in Charlevoix, Quebec

For further clarification regarding the above decisions, please feel free to contact any member of the CDN Board of Directors or the management staff.

Every country loves to tell you that they have the best Genetics in the world and that their cattle are superior to any others.  At a recent International Committee for Animal Breeding (ICAR) Session in Cork Ireland, a group of leading geneticists got together to discuss lots of highly scientific and many mind boggling things.  Tables upon tables of stats and graphs that look more like maps of the solar system and would make most people’s heads spin.  However, from that session there were some really interesting presentations about genetic improvement around the world that just needed to be “translated” into dairy speak.  The following is the Bullvine’s attempt to de-nerd the nerdy.

Look Who`s Talking

Canadian Dairy Network Researchers, along with an associate, presented a paper entitled “Genetic improvement: a major component of increased dairy farm profitability’.  To be totally honest it was the ‘profitability’ word that first drew our attention but on reading the paper, studying the power point presentation and listening to the video of the presentation on the Internet (http://www.icar.org/Cork_2012/index.htm) we garnered many interesting facts about the genetic merit of bulls and genetic trends by year for many traits in seventeen countries for the time period 1997 to 2006.  Sixteen of the seventeen countries studied were sampling more than 200 dairy bulls per year and in the USA both the TPI™ and Net Merit were included in the analysis since both are widely used total merit indexes.

Genetic Progress –Which Countries are winning the genetic race?

Are breeders in these 17 countries making genetic progress?  Definitely yes!  It is difficult to compare across countries given the multitude of ways of expressing sire proofs for traits across countries.  Therefore, the researchers converted the expression to standard deviation units (SD unit) and summarized the results in the accompanying graph comparing the time periods 1997-2001 to 2002-2006.

Yearly genetic progress by country and trait

Yearly genetic progress by country and trait (bulls born 2002‐’06)

It is interesting to see that while many of the major genetic markets in the world are advancing at similar rates, the Nordic countries are giving the United States a run for their money and the Canada was the sixth fastest advancing country, almost 18% behind the genetic advancement rate of the US and the Nordic Countries.

Canada`s NOT First

So I am sure many of my fellow Canadians are saying that we are ahead in the race, others may be gaining on us, but we still have the best cattle there are.  Well folks I hate to burst your bubble but as the following chart shows, for bulls born in 2005-2006, it’s actually the United States that are out ahead followed by France and Italy.  Canada comes in sixth, behind the Nordic regions and the Netherlands.

Average EBV of bulls born 2005‐'06 'for the 17 country average index

Average EBV of bulls born 2005‐’06 ‘for the 17 country average index

Genetic Progress by Trait – The Leaders and the ‘Also Rans’.

  • Protein Yield: Increasing rates of genetic gain have been achieved by all countries except for Ireland and New Zealand where progress has been flat lined due to the major selection emphasis being on fertility and other management traits.  The leaders for the increased genetic progress in protein yield are France, Nordic Countries and the Netherlands.
  • Overall Udder: The rate of genetic progress for udder is also building at an increase rate with the leaders being Italy, Canada and the USA.  Selection for udder improvement was not part of the breeding strategy in New Zealand and Ireland and no genetic progress was made for udders in those countries.
  • Longevity: Very significant progress was made for longevity in all countries with the leaders being Ireland, Italy, New Zealand and the USA with France following behind the rest of the pack.
  • Somatic Cell Score:  No genetic gain was made in any country from 1997-2001 for SCS.  However that turned around after 2001 and all countries made progress with the leaders for genetic progress being the USA, the Nordic Countries and Canada.
  • Calving to First Service: Ireland and New Zealand have made progress since 1999 and are significantly out in front of all other countries.  For the other countries there was negative progress until about 2003.  Since then all countries have started to give attention to this trait and the tide has turned to where slight progress was being made by 2006.  After Ireland and New Zealand, The Nordic Countries are leading the other countries in increasing their rate of genetic progress for this fertility trait.

So what happened to production?

There is Reduced Emphasis on Production. By way of example the researchers provided a graph (below) showing how The Netherlands and Ireland have gone from 100% emphasis on production traits in their total merit index in 1995 to approximately 30-35% in 2012.  While the USA and Canada have been more moderate in their reduced emphasis on production traits, from 70% to 45-50% in their 2012 total merit indexes.  There is more to breeding than all out selection for production but it is still an important component in the total scheme of things.

 

Relative emphasis in national selection indices

Relative emphasis in national selection indices

What Traits are Driving Progress?

When you take a look at the average genetic progress by trait across countries (graph below) you  see that the rate of genetic advancement in each area reflects the relative weighting change in each country`s  major index.  With the rate of genetic gain on longevity, health and fertility greatly improving and that for the production trait (protein) actually showing a slightly slower rate of genetic gain.  It is interesting to note that in the period of 1997-2001 the primary emphasis on protein improvement actually had a negative impact on the rate of improvement for fertility.

 

Average genetic progress by trait across countries

Average genetic progress by trait across countries

Different Strokes for Different Folks

As the chart below indicates, the relative weights each country put on each trait in their national indexes has a huge impact on the rate of genetic gain for those traits.  We understand that not every country dairy’s under the same circumstances.  Hence why for Japan places 72% of the emphasis on protein, fat and milk while the Netherlands places 26% of the emphasis on protein and fat yield.  Ireland and then the Nordic countries place the most emphasis on Health, Fertility and other management traits.  South Africa then USA (TPI™), Spain, The Netherland and Canada place the most emphasis on overall type.  Italy places the most emphasis on udders.  In addition, the USA (Net Merit) places the most emphasis on longevity.

Relative weighting of selection indices worldwide

Relative weighting of selection indices worldwide

The 2012 average weights placed on the various components in the 18 indexes are:

  • Production 48%
  • Type 17%
  • Longevity 11%
  • Fertility 11%
  • Udder Health  8%
  • Other  5%

Increased emphasis on functional traits in most countries has resulted in more genetic progress for these traits.  These advances were achieved without a reduction in the rate of progress for key production and conformation traits and without the use of genomic selection, since that new tool was not yet available. As genomic genetic evaluations were not occurring from 1997 to 2006, it will be interesting to see the trends for the five and ten years following 2006 when extensive use of gnomically evaluated bulls has occurred.

The Bullvine Bottom-line

Neither the art nor the science of dairy cattle breeding is dead.  In fact it can likely be said that rates of genetic improvement are about to accelerate.  Are we ready to keep up?

 

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Preferential Treatment – The Bull Proof Killer

Monday, January 7th, 2013

Accuracy of bull proofs has been one of the biggest challenges for dairy cattle improvement for many years.  It has been well known that top index cows have always received some level of “preferential treatment” and as a result their indexes have been inflated.  Usually this didn’t affect their sire’s proof since they were usually already proven sires and when weighted with many other daughters this had little to no effect on the sires proofs.  Enter genomics and large portions of young sire daughters receiving preferential treatment and this could have huge effects on the proofs of these genomic index bulls.  There is no question that the current systems around the world cannot account for this preferential treatment and as a result many genomic sires’ first proofs will be inflated.

In the past when young sires were sampled they were used across many different herd environments and regions.  I remember when regionally proven sire (California, etc) or breeder proven sires were released. Many breeders where hesitant to use them because they were not confident that these sires proofs would hold up.  Young sire programs in the past offered semen at low cost or pretty much free (when you factor in incentives) to many different breeders in order to ensure that the sire got enough daughters and that they would be able to achieve a reliable proof.

Does random sampling still exist?

Young sires are no longer randomly sampled.  In today’s genomic age, a lot of the systems and controls are gone.  Yes, many of the sires are still offered to all breeders, but these high-ranking young sires are sold at a much higher price, and marketed much heavier.  In addition often the first release semen is only used on contract matings on extremely high index, carefully selected mates.  This results in anything but random sampling and in reality is almost the perfect method for receiving an inflated proof.  It isn’t just because of the actual mates they are being used on but also because of the care the resulting calves will receive.

Why do daughters receive preferential treatment?

Think about it, if you have paid upward of $750 for a dose of semen (Read more – $750 Dollar Semen! Are you crazy?) to be used on your most valuable animals, wouldn’t you make sure you protected your investment by giving them the best care possible?  It is well known that top index cattle around the world have received over inflated indexes as a result of preferential treatment.  The problem is ‘how do we account for the biases?

Does the current system account for preferential treatment?

Genetic evaluation systems assume that all animals in the herd are treated equally.  Yet while there is nothing wrong with a breeder wanting to ensure their return on their investment in these top genetic animals, it certainly causes many problems when accounting for it in the genetic evaluations of these animals. (Read more – The Hot House Effect on Sire Sampling).

Most “animal-model” genetic evaluations in the world account for the genetic merit of a sire’s mates.  However, when the US first added females to their genomic reference set they actually got lower reliabilities as a result of inaccuracies in female’s proofs due to preferential treatment.  That is why some countries actually leave female genomic data out of their reference sets, as a large portion of the females are these high index animals that, in many cases, have received preferential treatment.  In the US they actually implemented a scaling-effect adjustment to bring those top females down.  The US has also implemented a new single-step model that includes genomic and traditional data together designed to account for this in bull proofs.  Other countries are also looking for potential solutions.  This includes potentially withholding early data from evaluations as well as other options.  The challenge is that no one has found a real solution to the actual problem, and steps so far just mask the issue with scale downs and other band-aids.

How to identify preferential treatment?

I recently attended a GEB session put on by CDN (Canadian Dairy Network) where they gave a presentation on accounting for herd bias.  Brian Van Doormaal presented a few different ways he theorized would identify bulls’ daughters who might have received this preferential treatment.  One indicator he presented of possible preferential treatment was if a high percentage of a bull’s early offering were the result of ET.  Another indicator he looked at was the percentage of daughters that have been genotyped.  However, neither delivered conclusive results.  Another suggestion that was presented was increasing the number of daughters a sire needs  in order to receive an official proof.  The challenge with that is that A.I. companies and most high profile breeders are wanting sires to get a proof as quickly as possible and increasing the requirements will cause delay.  In addition, analysis of semen price so far does not show it to be a great predictor either.  Currently there are simply no answers.

In Brian’s presentation he equated this problem to the challenges we have seen with second-country proofs.  In Canada bulls like Shottle, Planet and more recently Man-O-Man (Read more – Man-O-Man will he turn platinum? and Is Man-O-Man really going to be a sire of sons?) that come through with initial Canadian proofs over 3500 LPI, which everyone knows to be unrealistic, in time saw their proofs drop 300+ points with the addition of more daughters.  Van Doormaal also comments that you could expect bulls like Snowman, and genomic sires to do the same.

The Bullvine Bottom Line

Currently there are no definitive answers only growing concerns.  This preferential treatment problem is going to get greater attention, as more high profile genomic sires,  priced high and highly marketed will start to receive proofs in 2013. The industry must be proactive about this issue. If not we are going to see breeder confidence in proofs decrease, instead of increase, because of genomics. That would be a killer!


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.

 

 

 

Effective April 1st, 2013, there will be open access to breeders for genotyping any herdbook registered male, as has been the case since November 2008 for cows and heifers. Canadian Dairy Network (CDN) and  Holstein Canada have collaborated to achieve maximum efficiency and ease to Canadian producers and A.I. organizations.

Underlying Principles

When considering the multitude of options for allowing open access to genotyping bulls in Canada, the CDN Board of Directors agreed on some key underlying principles. First and foremost, it is understood that genomics will continue to have a major impact on genetic selection programs and this technology should therefore be widely available and actively encouraged. Secondly, the Canadian genetic evaluation system is highly recognized nationally and internationally so the availability of GLPI values must be promoted. Lastly, for the past 15 years genetic evaluation services in Canada have been totally industry funded (80% by A.I.
organizations and 20% by breed associations) so equity in fees must be maintained between A.I. versus privately owned bulls.

Genotyping Procedures and Fees

Holstein Canada currently provides genotyping services for heifers and cows in the Holstein, Jersey, Brown Swiss and Ayrshire breeds. Genomic tests currently available include (a) the basic “Low Density” (known as LD) panel with 6,000 SNPs, (b) an upgraded low density panel (known as LD-Plus or LD+) with 9,000 SNPs including the test for red coat colour in Holsteins plus various genetic recessive tests, and (c) the standard 50K panel with roughly 50,000 SNPs. Fees to Canadian producers for these three genotyping services are currently $45 for LD, $60 for LD+ and $135 for 50K, while an additional fee of $15 applies for foreign animals requested to be genotyped through Holstein Canada.

Effective April 1st, 2013, Holstein Canada will also accept genotyping requests for males with the procedures and fees being identical to those established for females. In addition, the current policy (excluding the GenoID program) that only animals registered in the herdbook can be genotyped will also be extended to males. Breeder owned bulls born in Canada must be genotyped through the Holstein Canada service for   inclusion in genomic evaluations in Canada and optionally the United States, whereas bulls born in the United States must be genotyped through services in that country. Males from countries outside of North America may also be genotyped through Holstein Canada with applicable fees.

Official Status and Publication of Genomic Evaluations

For genotyped females in Canada, the ongoing practise will continue such that CDN will freely release an official genomic evaluation including GLPI at the time of the first monthly release that includes their qualifying genotype with an automatic update at each subsequent official genetic evaluation release in April, August and December of each year. For females, the official status of their genomic evaluation means it will appear openly on the CDN and breed association web sites and can be used broadly in accordance with the Canadian Dairy Industry Publishing Code of Ethics.

On the male side, attaining official status for their GLPI will require the payment of a fixed rate fee to CDN, which equates to the average cost per bull that AI member organizations are expected to be paying for CDN genetic and genomic evaluation services. Therefore, once a privately owned young bull is genotyped through the Holstein Canada service and the associated fees including herdbook registration are paid, then CDN will provide to Holstein Canada the Canadian-based genomic evaluation details including its GLPI. For Holstein breeders, the Genomic Evaluation Report will be electronically posted on the owner’s Member internet account for access and printing and regularly updated until the bull reaches 12 months of age. For bull owners for other breeds, Holstein Canada will provide the same report to the respective breed association for passing along to the owner. It is important to note that such genomic evaluations will not be considered official in the CDN database and will therefore not be displayed on the CDN web site nor included on listings or transferred to breed associations for presentation on pedigrees, etc. The main purpose of providing such an “unofficial” genomic evaluation for genotyped bulls is to allow the owner to make decisions related to marketing, sale to an A.I. organization, private semen collection and promotion or even culling, depending on the superiority or inferiority of the young bull.

In the case whereby the private owner of a genomically tested young bull reaches an agreement with an A.I. member organization of CDN and the control of marketing rights is transferred to that A.I. organization, no additional payments to CDN are required by the breeder. The CDN genetic and genomic evaluation fees for such bulls will ultimately be covered by the A.I. organization that is a member of CDN. If no agreement is reached with an A.I. member organization of CDN and the owner wants an official GLPI and associated genomic evaluation in Canada, then payment of the established fee, which has been set at $7,500 per bull, must be received by CDN prior to the bull reaching 12 months of age. For privately owned bulls that surpass 12 months of age without payment of the CDN fee for official status, the provision of all genomic evaluation
services will cease and only traditional Parent Average values will be available for official documents and web site queries. For genomically tested bulls that reach three years of age without having more than 20 registered daughters born in Canada, CDN will officially release their Canadian-based genomic evaluation including GLPI at all subsequent official genetic evaluation releases in Canada.

Situation in the United States

Discussions within the dairy cattle improvement industry in the United States indicate an expected transition of genetic and genomic evaluation calculations away from the federal government (USDA) and towards an industry organization. This privatization of such services in the United States will also come with associated fees that are expected to be applied to genotyped bulls, cows and heifers. Therefore, also effective in early 2013 will be the implementation of a new fee structure in the United States for breeders and A.I. organizations to receive GTPI values and other associated genomic evaluations. For Canadian breeders, this
will mean a change to procedures for receiving a GTPI value for genotyped females and males through Holstein Canada but it is intended that Holstein Canada and CDN will continue collaborating to make this process as efficient and easy as possible.

Summary

The CDN Board of Directors has established a new fee structure applicable to breeder-owned young bulls that can be genotyped through Holstein Canada services starting in April 2013. To encourage as much male and female genotyping as possible in Canada, the fees applicable to females will be extended to registered males. Resulting GLPI values and associated genomic evaluations will automatically be made available to the bull owners on an unofficial basis until the bull reaches 12 months of age. For bulls without a transfer of ownership and/or semen controlling rights to an A.I. organization member of CDN, a payment of $7,500 must be received by CDN prior to the bull reaching 12 months of age in order for the GLPI and genomic evaluations to be officially released by CDN on its web site and transferred to the breed association for official pedigrees and other documents or queries.

For more check out the articles section of the CDN website.

The Council on Dairy Cattle Breeding (CDCB) met in Madison, Wis., Oct. 7-8, 2012. Following extensive industry discussion and planning, CDCB is moving forward ensuring the future leadership position for the U.S. dairy industry in genetic evaluations and management benchmarks.  Through collaboration within the U.S. dairy industry, CDCB’s plan will uphold the U.S. gold standard in developing and delivering high quality dairy genetics and management tools to dairy producers.

Meeting discussions centered on the proposed Business Plan and Cooperative Agreement, which had previously been available to the industry for comment. The proposed Business Plan and industry comments were presented to CDCB for discussion. After review, CDCB endorsed the proposed Business Plan as a roadmap for the new structure, with CDCB agreeing to a conference call in late October to review follow up refinements and changes. CDCB directors agreed to seek recommendations from assigned working groups for three specific areas in the Business Plan relating to: 1) bylaw changes, 2) Purebred Dairy Cattle Association (PDCA) quality certification of type, and 3) delivery of genomic evaluations for males beyond 15 months of age.

The latest draft of the Non-funded Cooperative Agreement with the U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS) along with industry comments were presented to the CDCB. The Council’s directors authorized Chair Ole Meland to work with USDA-ARS on the final version and sign the Cooperative Agreement as ARS has indicated they are intending to do before the end of December 2012.

CDCB also considered proposed changes to the organization’s bylaws, which will enable CDCB to move forward on the new course.  CDCB is working with its legal counsel in revising the governance structure outlined in the bylaws.  The revamped CDCB bylaws will incorporate:

  • remain a not-for-profit organization;
  • four member sectors – artificial insemination (National Association of Animal Breeders); dairy record providers (Dairy Herd Information Association); breed registry associations (PDCA); and dairy record processing centers;
  • allied industry can organize and come forward as a sector for non-voting advisory directors.

Each sector association will have three voting directors and allied industry may have up to two non-voting directors. A mechanism for allied industry to move to voting status will be provided in the future.

After in-depth discussion by CDCB, there is broad industry agreement for the new structure and direction to serve the best interests of U.S. dairy producers.

For further information, contact Ole Meland, CDCB Chair, email: omeland@accelgen.com or Jay Mattison, CDCB Vice Chair, email: jmattison@dhia.org

Everything You Need To Know About TPI and LPI

Thursday, August 23rd, 2012

How much do we really understand the TPITM and LPI system? Do we really know what they mean and what their limitations are? Earlier this week CDN General Manager Brian VanDoormaal posted an informative an interesting article, ‘Canadian Pride of the Canadian Kind!’, on the CDN website comparing and contrasting TPI™ and LPI, the national indexes for the USA and Canada. This got us here at the Bullvine thinking, maybe it’s time to revisit just what these indexes mean, why we have them and what their limitations are.

A New Tool was Needed

These indexes started in Canada and the USA for a number of reasons.  In 1984 Holstein Canada had adopted its breeding strategy whereby equal emphasis was to be placed on type and production yet almost two animal generations later breeders often continued to practice single trait selection – for show type, for conformation, for fat percent, for other traits. Marketers were all claiming to the #1 bull for this that or the other thing. In short the strategy was not being followed and the benefits of moving the population forward were not being achieved.

Setting the Standard for Continuous Improvement

TPI and LPI were introduced at relatively the same time and their primary achievement was to set a common base for breeders to rank their animals. Both indexes were first used over twenty years ago and have been continuously improved. Since starting as a way of combining type and production TPI™ and LPI have been enhanced by attaching economics to the traits.  This relates back to the breeders bottom line. The indexes have been adjusted to norms and standard deviations. For instance, milk yield is a big number and conformation is a single number, but their relative importance may be more closely related than the numbers alone would indicate.  Having said that, it was a good move to remove milk yield in favour of fat plus protein.  We don’t need to be shipping water or forcing cows to producing more and more low component milk.  Next conformation traits used in the indexes was limited over time to those of most economic importance on the farm. More recently the indexes have added health and fertility traits.

These are all worthwhile enhancements. Yes these indexes have been dynamic over the past two decades but have not been changed so frequently that they have lost the trust and support of the users

How to Use the Indexes

Today we make multiple uses of  TPI™ and LPI:

  • to select parents especially bulls to be used,
  • to market both males and females,
  • to follow the breed’s breeding strategy specifically indentifying the animals that best combine the traits and weightings in the strategy
  • used as culling tools within a herd or population primarily for proven bulls. Cows are most often culled for one or two economically limiting factors they have.

And the most important use of TPI™ and LPI

  • To rank animals based on the breeding strategy.

Moving the Population Forward!

It is the breeder’s and breeding companies that use the rankings to move their herd of the population forward. Since the traits in these indexes frequently have zero or negative correlations with each other, the indexes are a way to rank animals and come up with what is often referred to as ‘balanced breeding’. Animals with show type and production well below average or high production and low type, do little to improve herds or breeds.

Indexes Go Beyond the Numbers

Wouldn’t it be great, if you could just combine this LPI or TPI number with this trait you’re trying to improve and , “Voila!” you have the progeny that will improve your breeding program?  In 2012, when we are using, TPI™ and LPI we must be mindful that they include composite and predictive traits that are independent or negatively associated with each other. This means that the number in the index cannot be seen in the milk pail, in the eye of the breeder or in the bottom line of the farm. For instance a cow or bull with 3000 LPI – where do you see that number? It’s the combination of factors that is important. Simply stated, the indexes are a way of comparing the merits of animals.  The significance is in the comparison not in the number itself.

So what are the Results?

Since the adoption of both TPI™ and LPI, breeders and breeding companies have been able to significantly improve their herd and move the breeds forward according to the breeding strategies. The results can be seen in the udders in the barns and the volumes of fat and protein in the bulk tanks to name just three components of these indexes. Less obvious are the results for less heritable traits like feet and legs, SCS and the more recently added traits for female reproduction and longevity. Measuring the results of breeding is not easy or free of complication. Variables on each farm such as nutrition, housing, labour, management and environment can all impact the breeding results.

Annually CDN publishes the changes in many traits for the Canadian dairy cattle populations. These changes are estimates of the genetic gains made in the previous year. In 2012 the published changes for Holsteins include LPI +160, fat +3.4 kgs, protein +2.4 kgs. Conformation+1.05, Mammary System +0.93, Feet & Legs +0.81, Herd Life +0.50, SCS -0.03 and Daughter Fertility -0.27.  As you can see progress was not made for all traits. This happens because animals in the population are the result of breeder decisions and not the result of having a national breeding strategy. We do not have access to the results for the USA however we expect that they would mirror those in Canada.

Are There Limitations?

Yes there are two limitations.  First, as mentioned, TPI™ and LPI points cannot be seen by the human eye, measured in the bulk tank or on a farm’s financial statement. Secondly TPI™ and LPI function as if breeders are mating animals evenly rated for all components in the index. In actual fact, every bull and every cow has both strengths and limitations. Neither the absolute average nor the perfect animal in the population has ever been achieved. Each time a breeding decision is made, breeders must consider the attributes and limitations of both the male and the female in the population along with the objective of that particular mating and not just take the TPIs™ or LPIs of the parents, add them together and divide by two to get the resulting progeny!

The Bullvine Bottom Line

Even though TPI™ and LPI have limitations, they are beneficial tools to use in improving the genetics of North America’s dairy cows. There is no doubt that these indexes will be refined and improved in the future. The dairy cow of the future will be even better. Genetics does make a difference!

Genetic Evaluations – Why the Sky Is Not Falling

Wednesday, August 8th, 2012

As more and more early high genomic young sires are getting their daughter proofs in next week, I am sure we are going to hear that the sky is falling.  And yes, while there is much certainty that the bulls may drop, that in no way indicates that genomics does not work.

As early proofs have indicated, the large majority of genomic sires will drop.  But that should not have everyone running for the hills.  Instead, what you should do is look at 2 key metrics:  1) How they compare to the proven sires that where available at the same time as the breeding  2) The percentage that are returned to service.

Why genomic bulls may drop

While critics would say that any drop is not acceptable, that just shows that they do not understand how the system works.  There are other reasons that bulls may drop that most breeders may not consider;   here are a few reasons:

  • Hot House Effect
    While we all would like to believe that the system is faultless, that is just not the case.  It’s important to remember that proofs are first and foremost based on herd variation and genetic gain over their parents.  So if a genomic sire is used on a dam who maybe lost a teat, or was sick as a calf and did not develop to her full genetic potential, this will have a huge advantage for the genomic sire.  Same is true if breeders are looking to work that system.  By that, I mean they are going to have other genomic cattle in the herd that do not receive the same level of attention as the families that they are working to have succeeded. (read more here:  Has Genomics Knocked Out The Hot House Effect)
  • Higher Quality Dams
    In the past, young sires were used on G and the odd time a GP dam, but never on your high scoring 2yr olds.  But with genomics, we see sires being used on VG 2 yr olds.  Unless the progeny can score higher than the dam (not account for herd variance), it will be next to impossible for that bull to receive a positive type proof, let alone one that will allow them to be a breed leader.   However, the potential for these sires to have the exact opposite effect is very possible, for instance, they were used on a VG-87 2yr old and her resulting progeny ending up a GP-80 2yr old.  The sire will actually receive a much lower type score as a result.  In reality, it is better to compare and note the similarities between a genomic sires daughter proof to a 2nd crop proof of the past.
  • System Improvements
    As mentioned in the hot house bullet above, the system is not perfect.   These early proofs are based on the best educated guess that the geneticist could do given the data provided.  As more data is available it will be possible to refine the system.  The most useful data they will get will be these early genomic sires with daughter proofs.  This will allow them to see how effects such as being used on higher quality dams will have and how they can adjust the system to account for this.

Does it matter?

The critics will say that the AI companies could care less if the bulls drop.  They have sold so much semen on these young sires at such high rates that they have already made their profit.  And yes, this is partly true.  There is no question that a high genomic young sire will probably become a significant profit as compared to the past when they were a $50,000 investment.   And then there is still the issue of credibility.  It does not take long or many sires killing pedigrees before the clients of these AI companies will start losing business. The other part of the equation is that often these same AI companies have used these sires as sires of sons in their own programs, resulting in a significant risk for their programs and future profits as well.

The Bullvine Bottom Line

What breeders need to remember is, yes, genomic sires may drop.  But instead of running around like Chicken Little announcing the sky is falling, what they need to do is compare those same sires to the proven sires that were at the top of list at the time when they made the breeding decision.  From a systems perspective, it is better to look at what percentage of these genomic young sires are return to service.  This will indicate if the system is working or not.


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.

 

 

 

TPI™ and LPI – Marketing or Mating tools?

Thursday, July 19th, 2012

From old school dairy breeders telling you, “They are all worthless!” to geneticists telling you “They are the greatest thing since sliced bread!” it can be challenging to figure out whether tools like TPI® and LPI have significant merits in your breeding or marketing program

What Are They?

To get a better understanding of what each of these indexes represent start with the fact that  TPI® (Total Performance Index) and LPI (Lifetime Profit Index) are multi-trait indexes.  They both combine production, type, and health and fertility traits to rank sires on their ability to transmit an economic balance of these traits. TPI® is calculated by Holstein USA and LPI is calculated by The Canadian Dairy Network.

The big thing to remember about both of these indexes is that they are more or less a predictor of a bull’s ability to transmit based on established weightings.  For TPI® that weighting is as follows

TPI Formula

Source: Holstein USA, click on image for more details

Whereas LPI has the following weighting, 51% production, 29% conformation and 20% health traits. As you will notice, LPI actually puts a greater weighting on conformation and health than does the TPI®.

They’re Tools You Fool

The big thing to remember is both of these indexes were created to help identify superior sires that combined high production, sound conformation, and desirable health and fertility traits.  It does not mean that these sires are the only sires you should be using.  Or that if you only use these sires you will have the best herd in the world.

What it does mean is that you can use these tools to help short list what sires you are wanting to use, assuming that you are breeding for high production, conformation, and fertility.  If you are like some old school breeders who feel that high lactation production is not worth the tradeoff then fine, LPI and TPI® are not for you.  In reality, each breeding program would be best to develop their own index based on the needs and goals of their breeding program.  Maybe you would want more emphasis on health or type.  It all depends on your goals and then you work from there.

It’s All About the Marketing

Were these indexes created just for marketing?  No.  Were they created for ways to compare and sell sires?  Yes.  What’s the difference?  Well when both these indexes were created they had all the right intentions.  They were created for a way to compare sires on their overall genetic merits.  Which lead to major sale and marketing opportunities for those organizations and breeders who had the top sires.

I can remember that, before these multi-trait indexes were introduced,  everyone claimed to have the #1 sire or cow.  While that is still happening, for the most part TPI® and LPI provide the opportunity for breeders to gain a clear understanding of who is the top sire for producing high production, sound conformation, and healthy cattle.

The Bullvine Bottom Line

With so many different traits that are evaluated, trying to identify which sires have the overall best genetics can be very challenging.  While the TPI® and LPI formulas may not be the exact weighting that works for your breeding program, they are designed to represent that average breeder (if there is such a thing).  They are designed to give opportunity to compare sires on relative merits and see which sires rise to the top.  The big thing to remember is that they are to be used as tools! If you lose focus on that, these tools can have you looking like a fool!

Will there ever be another distinct bloodline?

Wednesday, June 20th, 2012

Before the recent Kueffner Kows at Cowtown Sale Horace Backus, commented that he had never seen anything like it in all his years!  “The quality of every animal and the homebred breeding was just so good.  Just before the sale started, I took a moment to walk through one of the lines of cows while it was quiet and everyone was already gathered in the tent.  I stood looking at a line of maybe 40 animals, and thought I was standing at Madison seeing that many great cows all together.”  These comments reminded me of the ones he made before the 1998 Hanover Hill Dispersal where Horace said, “In the history of the Holstein Breed, there have only been four or five herds that have created a distinct blood herd.  Today we are selling a distinct bloodline herd.”  This got me think will there ever be another distinct bloodline herd?

Over the years, the marketplace has changed greatly.  The improvements in technology have been incredible.  It is now easier than ever to market, compare and transport your genetics to anywhere in the world.  To get a better understanding how each of these will play into the potential of having another distinct bloodline, we decided to take a closer look at each one.

Marketing to the World

In the era of Hanover Hill era buyers did come in person from around the world.  The world has changed greatly with the Internet.  I often wonder what a great marketer like Peter Heffering would have done in today’s time.  The ability to market to a much larger audience through the internet and Facebook is expanding the marketplace.  You are no longer just selling to the person next door or in the same country or the few who are able to travel to buy.  You are often selling to people half way around the world.  And more importantly than where they are, is how quickly and easily you can reach them.  You no longer have to run magazine ads in each country’s major breed magazine.  Today you simply post a quick smartphone picture, or better yet video, on your Facebook page and share it with the world.

Cross Country Comparisons

One of the things that contributed greatly to each country or region having its own distinct bloodlines was that the ability to compare performance data on in each country presented challenges.  In previous generations, it was hard enough getting everyone to talk in the same units (ex. Lbs. vs. kgs.) let alone the fact that they had different methods of evaluating things.  Then came Interbull and MACE proofs. That started to open up the marketplace, but for some the confidence in the MACE system was not there and for the most part most countries still had regionalized breeding and evaluating systems.  Then came genomics that has given breeders around the world the confidence no matter where the bull was proven to use him on their cattle.  We now see that there is no longer a negative stigma in North America on foreign proven bulls.  Moreover, many of the great international cow families are gaining significant respect in the North American marketplace, especially as sons of these cattle have proven themselves well on the North American genetic base.

Transportation of Genetics

All the great marketing and evaluation systems in the world mean nothing if you cannot get the genetics to the consumers.  Artificial insemination had a drastic impact on the ability of breeders to develop distinct bloodlines.  Instead of just running your own breeding program where you sell the odd breeding bull, artificial insemination meant that when you sold that bull to an AI center, he would now be able to reach the world market.  With AI companies also becoming less regional or country focused and more world focused, that meant you could sell a bull in Chicoutimi Quebec and his semen could be used in Kamifurano Japan.  Breeders no longer had to develop their own bloodlines and could draw on the best bloodlines from around the world.  Furthermore, as embryo transfer technology advanced you could also import and export embryos and further accelerate your breeding programs.

The Bullvine Bottom Line

Today breeding herds like De-Su limit the amount of genetics they sell and AI organizations like Select Sires are entering the female animal ownership side in order to develop a distinct product in the marketplace.  Nevertheless, I truly feel that with the overall changes in the global marketplace we have a much more level playing field through evaluation systems and technology and, therefore, it is highly unlikely that we will see the achievement of a distinct bloodline at the level reached by Hanover Hill.

Nobody wants to make decisions based on the wrong information.  Good breeders know that accuracy is the key to making successful breeding decisions. Wouldn`t it be wonderful to have perfect data at our fingertips? There`s nothing wrong with dreaming the impossible dream but, realistically, in the business of cattle breeding, you can’t wait for that golden sunrise when perfection is a sure thing and 100% repeatable.

THE PAST:  Almost-Perfect

Whenever we look back at animal-breeding history, a rosy glow settles over our perception of the past.  For more than fifty years, we have constantly improved our North American genetic evaluation methods and models, proudly proclaiming them to be, if not perfect, at least the very best. Many of us felt we were destined to be at the top in cattle breeding forever.  Then, the very success we reveled in spread our success and our genetics to everyone else. Accuracy was harder to ensure. Genetic evaluation methods and models are based on accurate recording of pedigree and performance data and all international input data is not created equal from country to country. Nevertheless we trusted the Animal Model (1989), the Test Day Model (Canada 1999) and Interbull (the international proof system). And it was still good.

AND THEN CAME GENOMICS:  New Dart!  New Target!

Hardly a decade into the 21st Century and Genomics comes along and changes our perception of the future.  Here is a revolutionary new tool or dart, if you will, to take genetic aim with.  Now there can be more focused selection much earlier in the bull or heifer’s life. Since that first official genomic evaluation in August 2009 accuracy has increased. Great! But now even the genetic target has changed.  It is bigger. Now we don’t only target selection of proven bulls and performance recorded cows, but selection of young bulls and heifers, shortly after their birth.  The full potential of what we can aim for has yet to be imagined.

TODAY CLOSE ONLY COUNTS in Horseshoes, Hand Grenades AND GENOMICS

In the interest of accurate information, it is important to look at everything that may be a negative influence on achieving this goal. In a May 2012 article entitled, “The Ongoing Challenge of Accurate Genomic Evaluations” Brian VanDoormal (CDN) points out those things that make precision targeting harder to achieve:

  • Non-random usage
  • MACE evaluations
  • Parent Average less accurate when the parents are foreign
  • Estimating unbiased proofs for foreign sires
  • High priced foreign proven sire semen used on higher quality females in higher quality herds.
  • Differential treatment adds to bias of non-random usage
  • Non-random usage of elite progeny proven sires
  • Non-random usage of high ranking genomic young bulls

VanDoormaal goes on to report that, “ CDN is actively researching methods to reduce or eliminate such biases and to better incorporate MACE evaluations of foreign sires and bull dams into Canadian genomic estimations and officially published proofs.” He emphasizes, “One immediate area of importance being researched is the development of methods to reduce bias in evaluations for foreign sires and bull dams.”

GENETIC EVALUATION ACCURACY: A Hard Target with Collateral Benefits

Each step that increases accuracy increases the trust that breeders can place in the information.  In fine tuning genetic evaluations we benefit from increased accuracy in predicting other traits that previously we didn`t have data on: calf health; fertility; resistance to disease; specific components of milk; hoof health.

Not only has the arrival of genomics changed how genetic evaluations are calculated but it has also significantly changed male and female selection strategies by A.I. companies and breeders as well as semen usage trends by producers. Even breeders who do not use AI will benefit from genomics because they will have available to them bulls that test genomically high but that were not selected for AI.  Previously there was a wider range of bulls sampled at great expense.  With genomics, the entire gene pool of sires is being much more accurately identified for their genetic merit.

GENETIC EVALUATION ACCURACY is a MOVING TARGET

For more than 100 years cattle breeders have moved the industry ahead by selecting for the traits they felt were most important. There was a progressive emphasis as the focus changed or was expanded:  amount of milk in a single day; total milk in a liftetime; butterfat; protein; and conformation. New models and young sire programs were developed. All of these had an impact but the potential for genomics impact is far greater.  With genomics, large numbers of young bulls can be tested and eliminated with an enormous reduction in time and cost to the breeder and the industry. This adds to the burden of responsibility for genetic evaluations to be accurate and account for non-random selection and/or under-evaluated progeny proofs.

THE BULLVINE BOTTOM LINE

Will Genetic Evaluations ever achieve 100% accuracy?  Only time will tell. The challenge we face now is to keep the system steadily improving for the impact having accurate information can have not only for cattle breeding today but for generations to come.

For more information check out our Genetic Evaluation Resource Center.

For some time now the Council on Dairy Cattle Breeding (CDCB) has been working to establish a “Cooperative Agreement” with the USDA Agricultural Research Service (ARS) pertaining to the transfer of the USDA-­‐ARS dairy genetic evaluation service to the CDCB.  This has culminated in the recent release of a draft Cooperative Agreement for public comment.  The problem is that the draft lacks some of the core values that makes America great, specifically the ability for everyone to operate on a level playing field (access to information) and to be led by brave leadership driving toward a better future.

With these changes come many questions.  Some key issues follow.

Will everyone have access to the information?

Reading the agreement may require having a law degree to fully understand it.  This may be by intention, but it really doesn’t make for light reading.  Some of the language in the proposed agreement is very confusing. It talks about how the CDCB will have ownership and control of the information.  One of the reasons that the USA has been able to become the mega world power that it is was because it was founded on the belief that everyone is created equal and has equal opportunity to achieve success.  Looking at how the use of genomic information was handled in the past does not bode well for how everyone will get free access to the information.  Many smaller organizations are concerned that this will lead to a monopoly for a few A.I. studs.

The proposed wording is in stark contrast to allowing free access to the information for all those involved.  This actually causes a double edged sword.  On one side, the powers that be are limiting the small guy from competing at the same level.  However, there is also the interest about keeping much larger players, such as say Pfizer from entering.  In Canada, Pfizer is already offering genomic testing and what’s to stop them from using their many resources to use that information in new ways (read Are You Ready for Genetically Modified Cattle).

How do we maintain our integrity with breeders worldwide?

Similar to the views expressed by Greg Anderson of Seagull Bay Dairy, many breeders are concerned about the perceived integrity that comes from going away from a government organization (USDA) to a private entity.  Vice President of Holstein USA Glen Brown and Director Bill Wright also express these concerns,  Both men are also  dairy breeders and call for the need to develop  strong business plan, in the following video

 

While I do understand this concern, there are many examples worldwide, such as the Canadian Dairy Network (CDN), which has been able to maintain integrity and do it   without the political hurdles that come with government involvement.

One of the lessons learned from the CDN model is that you need equal representation from all parties involved, not just those who put up the most money.  CDN is majority funded by Industry and specifically A.I., but its board has equal representation from breed associations, breeders, and industry.  This is necessary in order to maintain the integrity of the organization and also to provide effective direction for the future.  One thing is for sure, it will take bold leadership through these times.  This makes me remember when Murray Hunt (Dad for disclosure sake) backed by the Canadian Genetic Evaluation Board, was facing a similar challenge in Canada. At the time he made some bold moves, hiring of Paola Rossi, and Gerald Jansen, Canadians working in Italy to do Canadian genetic evaluations, long before there was the full business plan, but rather had the agreement in principle.  Yes, this was putting the cart before the horse, but it also lead to the formation of the Canadian Dairy Network (CDN).

Who pays the bills?

As Holstein USA Director and dairy breeder Leroy Eggink, points out in the video above, it has been a great scenario for US breeders having taxpayers foot the bill.  But, that gravy train is over.  In Canada when that ship sailed, it left industry footing the bill.  Since A.I. represents the most direct profitable gain from genetic evaluations, that means they are left holding the bag. Ultimately, this cost is passed on to the breeders.  And while the response comes that we pay for all the systems that track and record this information, there is still the cost to convert that raw data into actionable information (bull proofs).

The one area the CDCB needs to remember is that all costs should be expensed equally and should not play favorites with the larger A.I. centers, as happened with Genomic information.  In an interview with Ron Flatness, Flatness International, he repeatedly expressed the concerns around price for the smaller competitors and protecting against un-needed additional fees.  (Following comments are that of the writer and not Ron) Instead of higher membership fees that will limit the involvement of smaller organizations or independent breeders, all costs need to be handled equally.  One standard price per sire sampled vs. a much larger membership fees, would be fair to everyone.

The Bullvine Bottom Line

Be careful what you ask for.  While many breeders want 100% free access to information, it isn’t always a good thing.  While there are many questions that still need to be answered, regarding a business plan, ownership of information and how to be as transparent as possible, I ask the question, “Is this a move to keep, not smaller players, but much larger players out of the marketplace?”

Here are some more great resources:

Dairy producers will have 29 days to comment on the Cooperative Agreement (May 7 to June 4).

If you have questions please contact any of the CDCB officers.

Contact information for USDA representatives: