Population structure and genetic diversity of 25 Russian sheep breeds based on whole-genome genotyping.
Population structure and genetic diversity of 25 Russian sheep breeds based on whole-genome genotyping.
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DOI：
10.1186/s12711-018-0399-5
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发表时间：
2018-05-24
期刊：
影响因子：
--
通讯作者：
Zinovieva NA
中科院分区：
文献类型：
--
作者：
Deniskova TE;Dotsev AV;Selionova MI;Kunz E;Medugorac I;Reyer H;Wimmers K;Barbato M;Traspov AA;Brem G;Zinovieva NA
俄罗斯有各种各样的本地和当地开发的绵羊品种，粗，细，半细羊毛，它们栖息在不同的气候带和景观，从炎热的沙漠到严酷的北方地区。迄今为止，没有全基因组信息已被用来调查现存的当地俄罗斯绵羊种群的历史和遗传特征。为了推断俄罗斯绵羊的群体结构和全基因组多样性，用OvineSNP 50微珠芯片对25个地方绵羊品种进行了基因分型。此外，为了评估外国品种在俄罗斯绵羊中的混合贡献，我们的数据中加入了一组来自公开的基因型的58个全球品种。我们记录了相似的观察杂合性（0.354-0.395）和等位基因丰富度（1.890-1.955）水平，在分析的品种，他们是与世界各地的品种中观察到的。最近的有效人口规模估计连锁不平衡五代前从65至543。多维缩放，混合物，和邻居网络分析一致确定了两步细分的俄罗斯当地绵羊品种。第一个分裂集群俄罗斯绵羊种群根据他们的羊毛类型（细羊毛，半细羊毛和粗羊毛）。达吉斯坦山和贝加尔湖细羊毛品种不同于其他美利奴衍生的地方品种。半细羊毛簇结合了一个品种的罗马尼亚起源，Tsigai，其衍生阿尔泰山，两个罗姆尼渐渗品种古比雪夫和北高加索，和林肯渐渗俄罗斯长毛品种。粗羊毛组包括北欧短尾罗曼诺夫，长肥尾离群Kuchugur和两个集群的肥尾羊：高加索山区品种和Buubei，Karakul，Edilbai，卡尔梅克和图瓦品种。俄罗斯肥尾羊品种与中国和亚洲西南部（伊朗）的羊有共同祖先。在这项研究中，我们得出了俄罗斯主要地方绵羊品种的遗传特征，这是适度的多样性和强大的人口结构。将我们的数据与世界范围内的基因分型集合并，可以更深入地了解俄罗斯绵羊种群的历史和起源。本文的在线版本（10.1186/s12711-018-0399-5）包含补充材料，可供授权用户使用。
Russia has a diverse variety of native and locally developed sheep breeds with coarse, fine, and semi-fine wool, which inhabit different climate zones and landscapes that range from hot deserts to harsh northern areas. To date, no genome-wide information has been used to investigate the history and genetic characteristics of the extant local Russian sheep populations. To infer the population structure and genome-wide diversity of Russian sheep, 25 local breeds were genotyped with the OvineSNP50 BeadChip. Furthermore, to evaluate admixture contributions from foreign breeds in Russian sheep, a set of 58 worldwide breeds from publicly available genotypes was added to our data. We recorded similar observed heterozygosity (0.354–0.395) and allelic richness (1.890–1.955) levels across the analyzed breeds and they are comparable with those observed in the worldwide breeds. Recent effective population sizes estimated from linkage disequilibrium five generations ago ranged from 65 to 543. Multi-dimensional scaling, admixture, and neighbor-net analyses consistently identified a two-step subdivision of the Russian local sheep breeds. A first split clustered the Russian sheep populations according to their wool type (fine wool, semi-fine wool and coarse wool). The Dagestan Mountain and Baikal fine-fleeced breeds differ from the other Merino-derived local breeds. The semi-fine wool cluster combined a breed of Romanian origin, Tsigai, with its derivative Altai Mountain, the two Romney-introgressed breeds Kuibyshev and North Caucasian, and the Lincoln-introgressed Russian longhaired breed. The coarse-wool group comprised the Nordic short-tailed Romanov, the long-fat-tailed outlier Kuchugur and two clusters of fat-tailed sheep: the Caucasian Mountain breeds and the Buubei, Karakul, Edilbai, Kalmyk and Tuva breeds. The Russian fat-tailed breeds shared co-ancestry with sheep from China and Southwestern Asia (Iran). In this study, we derived the genetic characteristics of the major Russian local sheep breeds, which are moderately diverse and have a strong population structure. Pooling our data with a worldwide genotyping set gave deeper insight into the history and origin of the Russian sheep populations. The online version of this article (10.1186/s12711-018-0399-5) contains supplementary material, which is available to authorized users.
影响因子：
3.7
作者：
Barbato M;Orozco-terWengel P;Tapio M;Bruford MW
通讯作者：
Bruford MW
影响因子：
4.6
作者：
Barbato M;Hailer F;Orozco-terWengel P;Kijas J;Mereu P;Cabras P;Mazza R;Pirastru M;Bruford MW
通讯作者：
Bruford MW
影响因子：
7
作者：
Alexander, David H.;Novembre, John;Lange, Kenneth
通讯作者：
Lange, Kenneth