Partitioning of international genetic

trends by origin in Brown Swiss bulls
Gorjanc, Potočnik, García-Cortés, Jakobsen, Dürr
Interbull 2011, Stavanger, Norway
Introduction
• Breed improvement
– domestic selection
– import of foreign animals/semen/…
• Comparison of country contributions to genetic
gain (at the national and International level)
– experiment?
– any other feasible approach?
Method
• Prior model for a in animal model
– unknown parents o
ì
= ŵ Ŷ
/
o
s
+ŵ Ŷ
/
o
d

ì
– unknown parents o
ì
= ˱
ì
ͷ = Ͱw, w = Ͱ
-1
ͷ
• García-Cortés et al. (2008) Animal 2:821-824
– Define ˫ partitions (countries) P
1
+P
2
+·+P
k
= ͫ
– Recognize
ͷ = Ͱw = ͰͰ
-1
ͷ
= Ͱ P
1
+P
2
+·+P
k
Ͱ
-1
ͷ
= ͰP
1
Ͱ
-1
ͷ +ͰP
2
Ͱ
-1
ͷ +·+ͰP
k
Ͱ
-1
ͷ
= ͷ
1

2
+·+ͷ
k
Implementation and example
• R package partAGV
> library(package="partAGV")
> res <- partAGV(x=ped)
> print(res)
id sire dam origin bv bv_pa bv_w bv_X bv_Y
1 A <NA> <NA> X 100 0 100 100.0 0.0
2 B <NA> <NA> Y 106 0 106 0.0 106.0
3 C A B X 104 103 1 51.0 53.0
4 D <NA> <NA> Y 106 0 106 0.0 106.0
5 E C D X 103 105 -2 23.5 79.5
> resS <- summary(res, by="generation")
> plot(resS)
Assumptions
A. Contributions are from base population onwards
B. Model producing ͷ is „appropriate“
C. Mendelian sampling term w of animal
registered/selected in country X is accredited to
country X (praise/blame)
D. Estimates for wconverge over time (accumulation
of information from various sources), but due to
assumption C we still accredit wto country X
Application to Brown Swiss MACE
Brown (Swiss) breed history in a nutshell
~19th century
~1950+
Europe
(Alpine region)
USA
Material
• „Sire-dam core MACE“ EBVs from April 2011
• CHE scale
Trait
Origin PRO SCS CC1 DLO
AUT 7,405 6,397 6,564 7585
CHE 8,900 8,720 8,846 9051
DEU 8,403 8,372 8,219 8631
FRA 542 533 / 509
ITA 4,413 4,097 827 4375
SVN 600 / / /
USA 2,904 2,837 2,154 2892
OTH 163 159 176 160
All 33,330 31,115 26,786 33202
1960 1970 1980 1990 2000
0.8
0.6
0.4
0.2
0.0
Proportion of genes by origin
Set and evaluate partitions
1960 1970 1980 1990 2000
3
2
1
0
Protein yield (PRO)
PRO, +3
SCS, -0.8
CC1, -0.6
DLO, +0.2
Conclusions
• Easy method for inferring country contributions
• In global Brown Swiss bull population we
observed the change of:
– protein yield +3 GSD
1.8 USA, 0.6 DEU, 0.2 ITA, 0.2 CHE, and 0.1 AUT
– somatic cell score -0.4 GSD ~USA
– fertility -0.6 GSD ~USA
– direct longevity +0.2 GDS ~USA
Partitioning of international genetic
trends by origin in Brown Swiss bulls
Gorjanc, Potočnik, García-Cortés, Jakobsen, Dürr
Interbull 2011, Stavanger, Norway

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