Genetic Diversity and Population Structures in Chinese Miniature Pigs Revealed by SINE Retrotransposon Insertion Polymorphisms, a New Type of Genetic Markers.
Genetic Diversity and Population Structures in Chinese Miniature Pigs Revealed by SINE Retrotransposon Insertion Polymorphisms, a New Type of Genetic Markers.
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新型遗传标记SINE逆转录转座子插入多态性揭示中国小型猪的遗传多样性和种群结构
DOI：
10.3390/ani11041136
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发表时间：
2021-04-15
期刊：
影响因子：
--
通讯作者：
Song C
中科院分区：
文献类型：
--
作者：
Chen C;Wang X;Zong W;D'Alessandro E;Giosa D;Guo Y;Mao J;Song C
我们的前期研究表明，短穿插核元件（sin）反转录转座子插入多态性（RIPs）作为近年来发展起来的一种新型分子标记，是一种理想的分子标记，具有用于猪群体遗传分析和分子育种的潜力，并有可能推广到其他家畜动物中。然而，在家畜（包括猪）群体遗传分析中应用SINE rip的报道尚未见。在这里，我们对几个中国本土小型猪品种的30个SINE片段进行了评估，包括巴马猪的三个亚群（BM-cov， BM-clo和BM-inb）。BM-cov是国家保护农场的一个亚种群，BM-clo是一个维持了30多年的封闭种群，只有2头公猪和14头母猪从原产地区进口，而BM-inb群是一个基于BM-clo种群的18代连续近交系。据我们所知，这是第一次使用SINE ripps报道这些群体的遗传多样性、品种分化和群体结构，这表明了SINE ripps在猪遗传分析中的可行性。ripps作为一种有效的遗传标记已被广泛应用于植物遗传分析，但在家畜遗传分析中却鲜有报道。在此基础上，我们建立了30个新的分子标记，并将其应用于7只中国小型猪的群体遗传分析。利用正弦rip估计的多态信息含量低于基于微卫星的预测。总体而言，30个种群间的遗传距离和品种关系与它们的进化和地理分布基本一致。我们证明了SINE rip作为猪遗传监测和群体结构分析的新遗传标记的潜力，甚至可以扩展到其他牲畜。
Our previous studies suggested that the short interspersed nuclear element (SINE) retrotransposon insertion polymorphisms (RIPs), as a new type of molecular marker developed very recently, are ideal molecular markers and have the potential to be used for population genetic analysis and molecular breeding in pigs and possibly it can be extended to other livestock animals as well. However, no report is available for the application of SINE RIPs in population genetic analysis in livestock, including pigs. Here, we evaluated 30 SINE RIPs in several indigenous Chinese miniature pig breeds, including three subpopulations of Bama pigs (BM-cov, BM-clo, and BM-inb). BM-cov is a subpopulation conserved in the national conservation farm, and BM-clo is a closed population maintained over 30 years with only 2 boars and 14 sows imported from its original area, while BM-inb herd is an 18 generation continuous inbreeding line based on the BM-clo population. To our knowledge, it is the first time to report the genetic diversity, breed differentiation, and population structures for these populations by using SINE RIPs, and which suggests the feasibility of SINE RIPs in pig genetic analysis. RIPs have been developed as effective genetic markers and popularly applied for genetic analysis in plants, but few reports are available for domestic animals. Here, we established 30 new molecular markers based on the SINE RIPs, and applied them for population genetic analysis in seven Chinese miniature pigs. The data revealed that the closed herd (BM-clo), inbreeding herd (BM-inb) of Bama miniature pigs were distinctly different from the BM-cov herds in the conservation farm, and other miniature pigs (Wuzhishan, Congjiang Xiang, Tibetan, and Mingguang small ear). These later five miniature pig breeds can further be classified into two clades based on a phylogenetic tree: one included BM-cov and Wuzhishan, the other included Congjiang Xiang, Tibetan, and Mingguang small ear, which was well-supported by structure analysis. The polymorphic information contents estimated by using SINE RIPs are lower than the predictions based on microsatellites. Overall, the genetic distances and breed-relationships between these populations revealed by 30 SINE RIPs generally agree with their evolutions and geographic distributions. We demonstrated the potential of SINE RIPs as new genetic markers for genetic monitoring and population structure analysis in pigs, which can even be extended to other livestock animals.
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影响因子：
4
作者：
Babatz, Timothy D;Burns, Kathleen H
通讯作者：
Burns, Kathleen H
影响因子：
64.8
作者：
通讯作者：
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DOI：
10.1016/j.vascn.2010.05.009
发表时间：
2010-11-01
影响因子：
1.9
作者：
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通讯作者：
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影响因子：
10.7
作者：
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通讯作者：
Tamura, Koichiro
影响因子：
2.5
作者：
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通讯作者：
Russo, Vincenzo