Post on 20-May-2020
Pablo Orozco-terWengel, F. Alberto, I. Streeter, M. Bruford & NextGen Consortium
August 2016
Belfast
The domestication history of sheep and goat
Domestication of Cattle Sheep Goat
Spread of domestics Into Europe Breed concept
Intensive selection
Paulus Potter (1625-1624)
Anthonie van Borssum (1630-1677
The timeline of domestication
Taberlet et al 2008, FAOSTAT, Scherf 2000
Threatened +
Extinct
Are cattle, goats and sheep endangered species……?
billion
Taberlet et al 2008, FAOSTAT, Scherf 2000
Ne Holstein (Denmark) ~ 49 (N~3.7m) Ne Jersey (USA) ~ 30 (N ~0.55m) Ne Japanese Black (Japan) ~ 17 (N~ 0.53m)
Ne ~ 627 (~N 3000)
Zhang et al. MBE 2007 LI et al 2010 Nature
Threatened +
Extinct
Are cattle, goats and sheep endangered species……?
billion
: Develop optimized methodologies for preserving farm-
Iran
Kijas et al 2012 PLoS Biology
animal biodiversity in the context of whole genome data availability
~36M SNPs Ovis ~24M SNPs Capra
Divergence between groups (FST)
Overall 0.05 Overall 0.053
Genetic variation in Wild ancestors and Domestics
Pairwise Sequentially Markovian Coalescent
Iranian mouflon and
sheep
Iranian bezoar and
goats
0,001
0,01
0,1
1
10
0 0,02 0,04 0,06 0,08 0,1Popu
latio
n si
ze (L
og10
)
Millions of years
Bayesian Skyline Plot whole mtDNA
IROO
IROA
IRCA
IRCH
Recent Demography
MSMC2 PSMC ->
-0.1
0
0.1
0.2
0.3
0.4
0.5
0 10 20 30 40 50 60 70 80
IROO IROA MOOA indusOA
Inbr
eedi
ngco
effic
ient
F
mouflon = IROO Iranian = IROA Moroccan = MOOA Industrial = indusOA
Genetic variation in Ovis
0
0.1
0.2
0.3
0.4
0.5
0 10 20 30 40 50 60 70 80
IRCA IRCH MOCH indusCH
Inbr
eedi
ngco
effic
ient
F
Bezoar = IRCA Iranian = IRCH Moroccan = MOCH Industrial = indusCH
Genetic variation in Capra
Wild vs. Domesticated
mouflon
Iran Morocco industrial
SNP1
YES
YES
NO
SNP9
YES
YES
Yes
Consistent Selection Signature: NO Yes
Consistent signatures of selection
XP-EHH
Consistent 1 % extreme
Comparison Wild Domestic
Mouflon Domestic 10927 15007
Bezoar Domestic 1245 805
Consistent signatures of selection
GO enriched in Mouflon GO enriched in Sheep
Consistent 1 % extreme
Comparison Wild Domestic
Mouflon Domestic 10927 15007
Bezoar Domestic 1245 805
Consistent signatures of selection
GO enriched in Mouflon GO enriched in Sheep
20 categories e.g. morphogenesis, hydrolyzation, and organization
15 categories e.g. differentiation, hematopoiesis and 6 GO on immunity
Work in progress….. • GO analysis on Capra
• Comparative analysis of the signatures of selection in both genera (domestication syndrome?)
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Acknowledgements
:
Pablo Orozco-terWengel, F. Alberto, I. Streeter, M. Bruford & NextGen Consortium
August 2016
Belfast
The domestication history of sheep and goat
Iran
Morocco industrial
SNP1
YES
NO
SNP9
YES
Yes
Consistent Selection Signature: NO Yes
The Adaptive landscape
Consistent signatures of selection II: Comparison Domesticats Iran vs. Rest
Consistent 1 % extreme
Comparison Wild Domestic
Wild vs Domestic Mouflon Domestic 10927 15007
Bezoar Domestic 1245 805
Iran Rest
Domestication Centre vs Rest
Iran Sheep vs Rest 23230 15940
Iran Goat vs Rest 3565 1049
The Adaptive landscape