Herded and hunted goat genomes from the dawn of domestication in the Zagros Mountains.
Herded and hunted goat genomes from the dawn of domestication in the Zagros Mountains.
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DOI：
10.1073/pnas.2100901118
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发表时间：
2021-06-22
影响因子：
11.1
通讯作者：
Bradley DG
中科院分区：
文献类型：
--
作者：
Daly KG;Mattiangeli V;Hare AJ;Davoudi H;Fathi H;Doost SB;Amiri S;Khazaeli R;Decruyenaere D;Nokandeh J;Richter T;Darabi H;Mortensen P;Pantos A;Yeomans L;Bangsgaard P;Mashkour M;Zeder MA;Bradley DG
山羊是最早的家畜之一，今天是一种重要的牲畜物种;来自伊朗西部扎格罗斯山脉的考古证据表明，山羊在9世纪末/8世纪初被管理。我们评估山羊组合Ganj Dareh和Tepe阿卜杜勒侯赛因，两个新石器时代扎格罗斯遗址，使用互补的考古动物学和考古基因组学方法。核和线粒体基因组表明，这些山羊是遗传多样性和祖先后来的国内山羊和已经从野生山羊不同。骨骼遗骸的人口概况，单亲标记的差异多样性模式，以及长期纯合性的存在，揭示了管理的实践和后果，从而扩大了我们对畜牧业起源的理解。在伊朗西部扎格罗斯山脉的新石器时代（公元前9600至7000年），提供了大约公元前8200年山羊（Capra hircus）管理和饲养的一些最早的考古证据，可检测到的形态变化出现在1,000年后。为了研究初始管理的基因组印记及其对山羊驯化过程的影响，我们分析了来自两个这样的站点Ganj Dareh和Tepe Abdul Hosein的14个新的核基因组（平均覆盖率1.13X）和32个线粒体（mtDNA）基因组（平均覆盖率143 X）。这些基因组显示出两个不同的簇：具有家养亲和力的簇和具有较强野生亲和力的少数群体，表明管理山羊在早期阶段与野生山羊在遗传上不同。这种遗传的双重性，长期纯合性的存在，与后来的新石器时代人口共享祖先，考古动物遗骸中的性别偏见，以及Ganj Dareh所有层的人口统计资料支持大约公元前8200 cal的遗传家养山羊的管理，并代表了迄今为止报道的最古老的牲畜基因组。在这些网站的高常染色体和mtDNA多样性的组合，对比有限的Y染色体谱系多样性，缺乏报道的选择签名的色素沉着，和野生形态的骨仍然说明驯化作为一个扩展的过程缺乏一个强大的初始瓶颈，开始与空间控制，人口操纵通过有偏见的男性淘汰，圈养繁殖，随后的表型和基因组选择。
Goats were among the first domestic animals and today are an important livestock species; archaeozoological evidence from the Zagros Mountains of western Iran indicates that goats were managed by the late ninth/early eighth millennium. We assess goat assemblages from Ganj Dareh and Tepe Abdul Hosein, two Aceramic Neolithic Zagros sites, using complementary archaeozoological and archaeogenomic approaches. Nuclear and mitochondrial genomes indicate that these goats were genetically diverse and ancestral to later domestic goats and already distinct from wild goats. Demographic profiles from bone remains, differential diversity patterns of uniparental markers, and presence of long runs of homozygosity reveal the practicing and consequences of management, thus expanding our understanding of the beginnings of animal husbandry. The Aceramic Neolithic (∼9600 to 7000 cal BC) period in the Zagros Mountains, western Iran, provides some of the earliest archaeological evidence of goat (Capra hircus) management and husbandry by circa 8200 cal BC, with detectable morphological change appearing ∼1,000 y later. To examine the genomic imprint of initial management and its implications for the goat domestication process, we analyzed 14 novel nuclear genomes (mean coverage 1.13X) and 32 mitochondrial (mtDNA) genomes (mean coverage 143X) from two such sites, Ganj Dareh and Tepe Abdul Hosein. These genomes show two distinct clusters: those with domestic affinity and a minority group with stronger wild affinity, indicating that managed goats were genetically distinct from wild goats at this early horizon. This genetic duality, the presence of long runs of homozygosity, shared ancestry with later Neolithic populations, a sex bias in archaeozoological remains, and demographic profiles from across all layers of Ganj Dareh support management of genetically domestic goat by circa 8200 cal BC, and represent the oldest to-this-date reported livestock genomes. In these sites a combination of high autosomal and mtDNA diversity, contrasting limited Y chromosomal lineage diversity, an absence of reported selection signatures for pigmentation, and the wild morphology of bone remains illustrates domestication as an extended process lacking a strong initial bottleneck, beginning with spatial control, demographic manipulation via biased male culling, captive breeding, and subsequently phenotypic and genomic selection.
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影响因子：
16.6
作者：
Alberto FJ;Boyer F;Orozco-terWengel P;Streeter I;Servin B;de Villemereuil P;Benjelloun B;Librado P;Biscarini F;Colli L;Barbato M;Zamani W;Alberti A;Engelen S;Stella A;Joost S;Ajmone-Marsan P;Negrini R;Orlando L;Rezaei HR;Naderi S;Clarke L;Flicek P;Wincker P;Coissac E;Kijas J;Tosser-Klopp G;Chikhi A;Bruford MW;Taberlet P;Pompanon F
通讯作者：
Pompanon F
影响因子：
3.5
作者：
Fournié G;Pfeiffer DU;Bendrey R
通讯作者：
Bendrey R
DOI：
10.1186/s12711-018-0422-x
发表时间：
2018-11-19
期刊：
Genetics, selection, evolution : GSE
影响因子：
--
作者：
Colli L;Milanesi M;Talenti A;Bertolini F;Chen M;Crisà A;Daly KG;Del Corvo M;Guldbrandtsen B;Lenstra JA;Rosen BD;Vajana E;Catillo G;Joost S;Nicolazzi EL;Rochat E;Rothschild MF;Servin B;Sonstegard TS;Steri R;Van Tassell CP;Ajmone-Marsan P;Crepaldi P;Stella A;AdaptMap Consortium
通讯作者：
AdaptMap Consortium
影响因子：
56.9
作者：
Daly, Kevin G.;Delser, Pierpaolo Maisano;Bradley, Daniel G.
通讯作者：
Bradley, Daniel G.
影响因子：
14.9
作者：
Briggs AW;Stenzel U;Meyer M;Krause J;Kircher M;Pääbo S
通讯作者：
Pääbo S