Author:
Liu Chenxi,Huang Ruihua,Su Guosheng,Hou Liming,Zhou Wuduo,Liu Qian,Qiu Zijian,Zhao Qingbo,Li Pinghua
Abstract
Abstract
Background
Eurasian pigs have undergone lineage admixture throughout history. It has been confirmed that the genes of indigenous pig breeds in China have been introduced into Western commercial pigs, providing genetic materials for breeding Western pigs. Pigs in Taihu Lake region (TL), such as the Meishan pig and Erhualian pig, serve as typical representatives of indigenous pig breeds in China due to their high reproductive performances. These pigs have also been imported into European countries in 1970 and 1980 s. They have played a positive role in improving the reproductive performances in European commercial pigs such as French Large White pigs (FLW). However, it is currently unclear if the lineage of TL pigs have been introgressed into the Danish Large White pigs (DLW), which are also known for their high reproductive performances in European pigs. To systematically identify genomic regions in which TL pigs have introgressed into DLW pigs and their physiological functions, we collected the re-sequencing data from 304 Eurasian pigs, to identify shared haplotypes between DLW and TL pigs.
Results
The findings revealed the presence of introgressed genomic regions from TL pigs in the genome of DLW pigs indeed. The genes annotated within these regions were found to be mainly enriched in neurodevelopmental pathways. Furthermore, we found that the 115 kb region located in SSC16 exhibited highly shared haplotypes between TL and DLW pigs. The major haplotype of TL pigs in this region could significantly improve reproductive performances in various pig populations. Around this genomic region, NDUFS4 gene was highly expressed and showed differential expression in multiple reproductive tissues between extremely high and low farrowing Erhualian pigs. This suggested that NDUFS4 gene could be an important candidate causal gene responsible for affecting the reproductive performances of DLW pigs.
Conclusions
Our study has furthered our knowledge of the pattern of introgression from TL into DLW pigs and the potential effects on the fertility of DLW pigs.
Funder
National Key R&D Program of China
Jiangsu seed industry revitalization project
Fundamental Research Funds for the Central Universities
Publisher
Springer Science and Business Media LLC
Reference38 articles.
1. Larson G, Dobney K, Albarella U, Fang M, Matisoo-Smith E, Robins J, et al. Worldwide phylogeography of wild boar reveals multiple centers of pig domestication. Science. 2005;307:1618–21. https://doi.org/10.1126/science.1106927.
2. Liu C, Li P, Zhou W, Ma X, Wang X, Xu Y, et al. Genome Data Uncover Conservation Status, historical relatedness and candidate genes under selection in Chinese Indigenous pigs in the Taihu Lake Region. Front Genet. 2020;11:591. https://doi.org/10.3389/fgene.2020.00591.
3. Hunter MG, Picton HM, Biggs C, Mann GE, McNeilly AS, Foxcroft GR. Periovulatory endocrinology in high ovulating Meishan sows. J Endocrinol. 1996;150:141–7. https://doi.org/10.1677/joe.0.1500141.
4. Li P, Ma X, Zhang Y, Zhang Q, Huang R. Progress in the physiological and genetic mechanisms underlying the high prolificacy of the Erhualian pig. Hereditas. 2017;39:1016–24.
5. China National Commission of Animal Genetic Resources. Animal Genetic resources in China pigs. Beijing: Agriculture Press; 2011.