application of genomic selection on your dairy...12/11/2015 1 stepping forward december 9 & 10 |...

12/11/2015

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Stepping ForwardDecember 9 & 10 | Dairy Summit 2015 | Baraboo, Wis.

Application of Genomic Selection on Your Dairy

P. C. Hoffman

Vita Plus Corp, Madison, WI

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% o

f 1s

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acta

tion

Cow

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305 d Milk Yield, lbs

1st Lactation Milk Production (30,000 lb herd)Bred AI 50 + years

Genetic variance of milk production is increasing not decreasing!

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% of 1st Lactation Cows

305 d Milk Yield, lbs

What causes the variance?

Parent Average +

Mendelian Sampling Effect

Environment/Management

Genetic variance of milk production is worth more $$ today!

How do we find more of the variance ?

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Single Nucleotide Polymorphism

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SNP

SNP

Courtesy of George Wiggans, USDA‐AIPL


Estimating SNP Effects on Production

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PT

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or

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tein

Yie

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Number of Copies of the ND-SNP Allele

Slope of the line indicates the estimated SNP effect, which is the change in PTA protein per extra copy of a given SNP allele

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Genomics- Commercial Testing ABCs

Reg. #

USD

A AIN

Vacc. #

Oth

er

6751 982000133517324 x US4071556 F HO 11/21/2010 7H7853 355HE8261

6754 982000133517327 x US4071540 F HO 11/28/2010 200H3218 35SHE8183

6758 982000133517331 x US4071529 F HO 11/30/2010 200H6004 35SHE7962

6759 982000133517332 x US4071533 F HO 11/30/2010 7H10489 35SHE7938

6764 982000133517337 x US4071521 F HO 12/6/2010 14H4929 35SHE7999

6766 982000133517339 x US4071517 F HO 12/8/2010 11H9703 35SLS7488

6768 982000133517341 x US4071525 F HO 12/9/2010 7H9030 35SHE5165

6770 982000133517343 x US4071550 F HO 12/12/2010 29H13245 35SHE5981

6771 982000133517344 x US4071513 F HO 12/12/2010 14H4929 840003003932331

6775 982000133517348 x US4071554 F HO 12/15/2010 29H13245 35TDN0336

6857 98200013351430 x US4071536 F HO 4/12/2011 29H13245 35SHE5128

Hand Entry

Dairy Comp 305 (Cut and Paste)

On‐farm ID (Herd

Management #)

Sire

Registration #

Birth Date

(yyyy/mm/d

d) or Birth

YearSex

Sample

Collector

Barcode

Official ID (Registration

#, USDA AIN, Calfhood

Vaccination #)

Breed

(HO/JE/

BS)

Dam Registration # or

USDA AIN

Fill out the Form- Done by bar code to Dairy Comp- Improper Parent/Sire/Dam/Breed ID = 10-15 % Normal

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Genomic Lab Results* Samples Due 1st of Month

* Lab Turnaround = 30-40 days

GPTA Milk +1114 +141 -1041 +490Average = 176 GPTA Milk

• Genomic Results GPTA Milk (4 Heifer Example)

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11 Presentation Title – 00/00/12 (Optional)

University of Wisconsin(Marshfield, Arlington, UW Dairy Cattle Center)

Data AnalysisMarch 2015


Sire of ConceptionBull # Herd

PregnantMilk PTA

NM$ PTA

DPR PTA

Rel.

GOLD CHIP (7H10920) 46 -151 139 0.7 95

TABBER (29H14258) 44 519 307 0.6 91

ARMITAGE (29H14961) 44 656 395 3.8 94

YANCE (7H9925) 44 1427 433 1 91

ALTAMETEOR (11H10661) 44 1233 475 1.4 96

•The strategy to using genomic-proven bulls is to use a group, spreading semen usage over more bulls.

•This strategy will minimize the impact of PTAs changing for any one sire due to the lower reliability.

•UW is primarily using daughter-proven bulls•~20% of conceptions are to genomic-proven bulls

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305ME Production=28847+3.8*GPTA MilkCorrelation=0.45

Herd Response to Genetic Selection

Observed 3.8lbs/GPTA MilkExpected 2lbs/GPTA Milk

Genomics management is just trying to find the top and the bottom. A dairy can’t cullall their heifers!

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EffectiveUseofGenomicsinSireSelectionandReplacementHeiferManagement

Dr.KentA.WeigelDepartmentofDairyScience

UniversityofWisconsin– Madison

ResultsfromtheUW‐MadisonHerd

27,498

29,247

29,67329,864

26,780

27,864

30,050

31,581

24000

25000

26000

27000

28000

29000

30000

31000

32000

Bottom 25% Bottom 25‐50% Top 25‐50% Top 25%

Sorted by Sire's Current PTA Milk

Sorted by Genomic PTA Milk as a Yearling Heifer

First Lactation 305‐Day M

E Milk Yield (lb)

Quartile Ranking

Average first lactation ME 305‐day milk yield for 411 Holstein cows in the AllensteinDairy Herd at UW‐Madison, according to quartile for genomic PTA milk at 12 months of age and quartile for sire’s current PTA for milk yield.

2,366 lb

4,801 lb

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116.5

124.9

104.9

113.1

125.9

114.9113.6

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Sorted by Sire's Current PTA DPR

Sorted by Genomic PTA DPR as a Yearling Heifer

Quartile Ranking

First Lactation Days Open

Average days open in first lactation for 240 Holstein cows in the Allenstein Dairy Herd at UW‐Madison, according to quartile for genomic PTA for daughter pregnancy rate at 12 months of age and quartile for sire’s current PTA for daughter pregnancy rate.

3.4 d21.0 d


2.202.14

2.22

1.65

2.38

2.162.10

1.56

1.25

1.50

1.75

2.00

2.25

2.50


Sorted by Sire's Current PTA SCS

Sorted by Genomic PTA SCS as a Yearling Heifer

Quartile Ranking

First Lactation log SCC

Average log somatic cell count in first lactation for 216 Holstein cows in the Allenstein Dairy Herd at UW‐Madison, according to quartile for genomic PTA for somatic cell score at 12 months of age and quartile for sire’s current PTA for somatic cell score.

0.820.55

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ResultsfromtheaCommercialHerd

Genomic PTA computed in August 2013 was compared with actual first lactation production, fertility, and udder health

All Holstein cows that had first calving after August 2013 were included in the analysis

ResultsfromaCommercialHerd

Quartile Ranking


E Milk Yield

Average standardized 305‐day ME milk yield in first lactation for 407 Holstein cows in the herd, according to quartile for genomic PTA for milk yield prior to first calving.

27,341

30,331 30,218

32,402

29,314

29,868

30,296

30,779

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27000

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29000

30000

31000

32000

33000

34000


Genomic PTA as a Yearling Heifer

Current Sire PTA

1,465 lb

5,061 lb

MILK

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Quartile Ranking


E Fat Yield

Average standardized 305‐day ME fat yield in first lactation for 407 Holstein cows in the herd, according to quartile for genomic PTA for fat yield prior to first calving.

1,286

1,332

1,380

1,391

1,311

1,343 1,345

1,385

1260

1280

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1340

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1380

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1420



Current Sire PTA

74 lb

105 lb

FAT


Quartile Ranking


E Protein Yield

Average standardized 305‐day ME protein yield in first lactation for 407 Holstein cows in the herd, according to quartile for genomic PTA for protein yield prior to first calving.

922

972

996

1,015

933

982

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940

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980

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1040



Current Sire PTA

66 lb

93 lb

PROTEIN

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Quartile Ranking

First Lactation Days Open

Average days open in first lactation for 192 Holstein cows in the herd, according to quartile for genomic PTA for daughter pregnancy rate prior to first calving.

143

120

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Current Sire PTA

21 d

31 d

DAYS OPEN


Quartile Ranking

First Lactation Somatic Cell Score

Average somatic cell score in first lactation for 407 Holstein cows in the herd, according to quartile for genomic PTA for somatic cell score prior to first calving.

2.48

2.03

1.97

1.92

2.19 2.19

2.10

1.93

1.70

1.80

1.90

2.00

2.10

2.20

2.30

2.40

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2.60



Current Sire PTA

SOMATIC CELL SCORE

0.26

0.56

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Take Home Messages

To increase genetic progress and revenue, genomics requires a protocol for sire selection, sexed semen, genomic testing, health status, early culling, etc.

There is no perfect “one size fits all” protocol

The appropriate protocol for a given herd will depend on genetic level, facilities, expansion plans, feed costs, cash flow, and other factors

Genomic information is not research data. It is an enhancement of genetic probabilities

Like other new management tools (rBST, BMR, GMO) genomics has its share of detractors

application of genomic selection on your dairy...12/11/2015 1 stepping forward december 9 & 10 |...

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