Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep
Objective Lambing in ewes is a complex and crucial aspect of sheep production that directly influences economic viability and production efficiency. In the present study, we analyzed the genomes of single lamb (SLE) and twin lamb (TLE) Hotan sheep to elucidate the genetic mechanisms underlying lamb...
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| Format: | Article |
| Language: | English |
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Asian-Australasian Association of Animal Production Societies
2025-07-01
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| Series: | Animal Bioscience |
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| Online Access: | http://www.animbiosci.org/upload/pdf/ab-24-0336.pdf |
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| author | XinKun Wang Wei Li QiaoYan Huang HuiPing Sun LeXiao Zhu RuoHuai Gu Feng Xing |
| author_facet | XinKun Wang Wei Li QiaoYan Huang HuiPing Sun LeXiao Zhu RuoHuai Gu Feng Xing |
| author_sort | XinKun Wang |
| collection | DOAJ |
| description | Objective Lambing in ewes is a complex and crucial aspect of sheep production that directly influences economic viability and production efficiency. In the present study, we analyzed the genomes of single lamb (SLE) and twin lamb (TLE) Hotan sheep to elucidate the genetic mechanisms underlying lamb production in Hotan sheep. Methods In this study, we used genome-wide resequencing to analyze the genomes of Hotan sheep exhibiting SLE and TLE traits. To identify the population genetic structure and linkage disequilibrium associated with SLE and TLE traits, we employed two complementary genome selection signals: the interpopulation genetic differentiation index (FST) and nucleotide diversity. Subsequently, we performed gene annotation and enrichment analyses of the selected regions of the obtained genome. Results Our analysis generated 801 Gb of sequence data, from which 31,864,651 high-quality single nucleotide polymorphic loci were identified. We identified 290 selected regions and 332 genes across the Hotan sheep genome by using two widely adopted selective scanning detection methods (FST statistics and Piratio). Functional annotation and enrichment analysis of these genes identified 13 genes associated with the lambing rate, which were enriched in pathways such as the transforming growth factor-β signaling pathway (BMPR2, ID2, SMAD7, THBS1, and RBX1), renal cell carcinoma (PAK1, ELOC), inositol phosphate metabolism (PLCZ), non-homologous terminal junction (RAD50), ABC transporters (ABCC4), and the NET pathway (H2B, H4, and H2A). Conclusion This study employed selective elimination analysis to identify candidate genes involved in the regulation of lambing trait in Hotan sheep. By investigating the molecular mechanisms underlying lambing rate in Hotan sheep, we developed molecular markers for twin lambing to enhance reproductive performance and promote the conservation and development of outstanding genetic resources in local Xinjiang sheep. |
| format | Article |
| id | doaj-art-47d41084e1054e37bf0e8f66f0fe1c7e |
| institution | OA Journals |
| issn | 2765-0189 2765-0235 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Asian-Australasian Association of Animal Production Societies |
| record_format | Article |
| series | Animal Bioscience |
| spelling | doaj-art-47d41084e1054e37bf0e8f66f0fe1c7e2025-08-20T02:38:36ZengAsian-Australasian Association of Animal Production SocietiesAnimal Bioscience2765-01892765-02352025-07-013871384139710.5713/ab.24.033625387Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheepXinKun Wang0Wei Li1QiaoYan Huang2HuiPing Sun3LeXiao Zhu4RuoHuai Gu5Feng Xing6 Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, China Key Laboratory of Tarim Animal Husbandry Science and Technology, Xinjiang Production and Construction Group, Alar, ChinaObjective Lambing in ewes is a complex and crucial aspect of sheep production that directly influences economic viability and production efficiency. In the present study, we analyzed the genomes of single lamb (SLE) and twin lamb (TLE) Hotan sheep to elucidate the genetic mechanisms underlying lamb production in Hotan sheep. Methods In this study, we used genome-wide resequencing to analyze the genomes of Hotan sheep exhibiting SLE and TLE traits. To identify the population genetic structure and linkage disequilibrium associated with SLE and TLE traits, we employed two complementary genome selection signals: the interpopulation genetic differentiation index (FST) and nucleotide diversity. Subsequently, we performed gene annotation and enrichment analyses of the selected regions of the obtained genome. Results Our analysis generated 801 Gb of sequence data, from which 31,864,651 high-quality single nucleotide polymorphic loci were identified. We identified 290 selected regions and 332 genes across the Hotan sheep genome by using two widely adopted selective scanning detection methods (FST statistics and Piratio). Functional annotation and enrichment analysis of these genes identified 13 genes associated with the lambing rate, which were enriched in pathways such as the transforming growth factor-β signaling pathway (BMPR2, ID2, SMAD7, THBS1, and RBX1), renal cell carcinoma (PAK1, ELOC), inositol phosphate metabolism (PLCZ), non-homologous terminal junction (RAD50), ABC transporters (ABCC4), and the NET pathway (H2B, H4, and H2A). Conclusion This study employed selective elimination analysis to identify candidate genes involved in the regulation of lambing trait in Hotan sheep. By investigating the molecular mechanisms underlying lambing rate in Hotan sheep, we developed molecular markers for twin lambing to enhance reproductive performance and promote the conservation and development of outstanding genetic resources in local Xinjiang sheep.http://www.animbiosci.org/upload/pdf/ab-24-0336.pdfcandidate geneshotan sheeplambing rateselection signalwhole-genome resequencing |
| spellingShingle | XinKun Wang Wei Li QiaoYan Huang HuiPing Sun LeXiao Zhu RuoHuai Gu Feng Xing Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep Animal Bioscience candidate genes hotan sheep lambing rate selection signal whole-genome resequencing |
| title | Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep |
| title_full | Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep |
| title_fullStr | Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep |
| title_full_unstemmed | Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep |
| title_short | Genomic signal selection analysis reveals genes related to the lambing trait of Hotan sheep |
| title_sort | genomic signal selection analysis reveals genes related to the lambing trait of hotan sheep |
| topic | candidate genes hotan sheep lambing rate selection signal whole-genome resequencing |
| url | http://www.animbiosci.org/upload/pdf/ab-24-0336.pdf |
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