Patterns of East Asian pig domestication, migration, and turnover revealed by modern and ancient DNA.
The establishment of agricultural economies based upon domestic animals began independently in many parts of the world and led to both increases in human population size and the migration of people carrying domestic plants and animals. The precise circumstances of the earliest phases of these events remain mysterious given their antiquity and the fact that subsequent waves of migrants have often replaced the first. Through the use of more than 1,500 modern (including 151 previously uncharacterized specimens) and 18 ancient (representing six East Asian archeological sites) pig (Sus scrofa) DNA sequences sampled across East Asia, we provide evidence for the long-term genetic continuity between modern and ancient Chinese domestic pigs. Although the Chinese case for independent pig domestication is supported by both genetic and archaeological evidence, we discuss five additional (and possibly) independent domestications of indigenous wild boar populations: one in India, three in peninsular Southeast Asia, and one off the coast of Taiwan. Collectively, we refer to these instances as "cryptic domestication," given the current lack of corroborating archaeological evidence. In addition, we demonstrate the existence of numerous populations of genetically distinct and widespread wild boar populations that have not contributed maternal genetic material to modern domestic stocks. The overall findings provide the most complete picture yet of pig evolution and domestication in East Asia, and generate testable hypotheses regarding the development and spread of early farmers in the Far East.
Larson
Greger
G
State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing 100193, China. greger.larson@durham.ac.uk
Liu
Ranran
R
Zhao
Xingbo
X
Yuan
Jing
J
Fuller
Dorian
D
Barton
Loukas
L
Dobney
Keith
K
Fan
Qipeng
Q
Gu
Zhiliang
Z
Liu
Xiao-Hui
XH
Luo
Yunbing
Y
Lv
Peng
P
Andersson
Leif
L
Li
Ning
N
D000383:Agriculture / Q000266:history*; D025041:Animal Migration; D000818:Animals; D001483:Base Sequence; D016000:Cluster Analysis; D004272:DNA, Mitochondrial / Q000235:genetics*; D003710:Demography; D019143:Evolution, Molecular; D005202:Asia, Eastern; D005580:Fossils; D005843:Geography; D006239:Haplotypes / Q000235:genetics; D049690:History, Ancient; D006801:Humans; D008969:Molecular Sequence Data; D010802:Phylogeny; D017422:Sequence Analysis, DNA; D034421:Sus scrofa
D004272:DNA, Mitochondrial
Proc Natl Acad Sci U S A. 2004 Aug 31;101(35):12963-8
15317936
Mol Biol Evol. 1999 Jan;16(1):37-48
10331250
Trends Genet. 2006 Mar;22(3):139-55
16458995
Genetics. 2000 Apr;154(4):1785-91
10747069
Anim Genet. 2007 Oct;38(5):499-505
17894564
Proc Natl Acad Sci U S A. 2007 Sep 25;104(39):15276-81
17855556
BMC Evol Biol. 2006 Sep 22;6:73
16995938
Bioinformatics. 1998;14(9):817-8
9918953
Bioinformatics. 2003 Aug 12;19(12):1572-4
12912839
Science. 2003 Apr 25;300(5619):597-603
12714734
Proc Natl Acad Sci U S A. 2007 Mar 20;104(12):4834-9
17360400
Proc Natl Acad Sci U S A. 2009 Apr 7;106(14):5523-8
19307567
Genet Sel Evol. 2008 Jan-Feb;40(1):103-28
18096118
Proc Natl Acad Sci U S A. 2008 Apr 1;105(13):5123-8
18347332
Mol Phylogenet Evol. 2010 Mar;54(3):680-6
19900568
Biol Lett. 2008 Dec 23;4(6):752-4
18713712
Proc Natl Acad Sci U S A. 2009 May 5;106(18):7367-72
19383791
Mol Phylogenet Evol. 2006 Jan;38(1):12-9
16275023
Proc Natl Acad Sci U S A. 2008 Jul 29;105(30):10308-13
18663216
Science. 2005 Mar 11;307(5715):1618-21
15761152
Genome Biol. 2007;8(11):R245
18021448
Zoolog Sci. 2002 Nov;19(11):1329-35
12499677
Science. 2009 Mar 20;323(5921):1607-10
19299619