Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters
Abstract Chinese hamster with Chinese characteristics is used in experiments, and it is of great value in the field of medical biology research. However, at present, there is no high‐efficiency method for evaluating the genetic quality of Chinese hamsters. Here, we developed a novel Chinese hamster...
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| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2025-05-01
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| Series: | Animal Models and Experimental Medicine |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/ame2.70006 |
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| _version_ | 1850141806981808128 |
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| author | Minghe Sun Yafang Guo Zhengnan Ren Ang Song Jing Lu Changlong Li Jianyi Lv Meng Guo Xin Liu Xiaoyan Du Zhaoyang Chen Guohua Song Yan He Zhenwen Chen Xueyun Huo |
| author_facet | Minghe Sun Yafang Guo Zhengnan Ren Ang Song Jing Lu Changlong Li Jianyi Lv Meng Guo Xin Liu Xiaoyan Du Zhaoyang Chen Guohua Song Yan He Zhenwen Chen Xueyun Huo |
| author_sort | Minghe Sun |
| collection | DOAJ |
| description | Abstract Chinese hamster with Chinese characteristics is used in experiments, and it is of great value in the field of medical biology research. However, at present, there is no high‐efficiency method for evaluating the genetic quality of Chinese hamsters. Here, we developed a novel Chinese hamster genetic quality detection system using single‐nucleotide polymorphism (SNP) markers. To find SNP loci, we conducted whole genome sequencing on 24 Chinese hamsters. Then, we employed an SNP locus screening criterion that we set up previously and initially screened 214 SNP loci with wide genome distribution and high polymorphism level. Subsequently, we developed the SNP detection system using a multitarget region capture technique based on second‐generation sequencing, and a 55 SNP panel for genetic evaluation of Chinese hamster populations was developed. PopGen.32. analysis results showed that the average effective allele number, Shannon index, observed heterozygosity, expected heterozygosity, average heterozygosity, polymorphism information, and other genetic parameters of Chinese hamster population A were higher than those in population B. Using scientific screening and optimization, we successfully developed a novel Chinese hamster SNP genetic detection system that can efficiently and accurately analyze the genetic quality of the Chinese hamster population. |
| format | Article |
| id | doaj-art-90c9ebe8634f4bbca9315bb1a4387390 |
| institution | OA Journals |
| issn | 2576-2095 |
| language | English |
| publishDate | 2025-05-01 |
| publisher | Wiley |
| record_format | Article |
| series | Animal Models and Experimental Medicine |
| spelling | doaj-art-90c9ebe8634f4bbca9315bb1a43873902025-08-20T02:29:18ZengWileyAnimal Models and Experimental Medicine2576-20952025-05-018591692110.1002/ame2.70006Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamstersMinghe Sun0Yafang Guo1Zhengnan Ren2Ang Song3Jing Lu4Changlong Li5Jianyi Lv6Meng Guo7Xin Liu8Xiaoyan Du9Zhaoyang Chen10Guohua Song11Yan He12Zhenwen Chen13Xueyun Huo14School of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaShanxi Key Laboratory of Human Disease and Animal Models, Experimental Animal Center of Shanxi Medical University Taiyuan ChinaShanxi Key Laboratory of Human Disease and Animal Models, Experimental Animal Center of Shanxi Medical University Taiyuan ChinaSchool of Public Health Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaSchool of Basic Medical Sciences Capital Medical University Beijing ChinaAbstract Chinese hamster with Chinese characteristics is used in experiments, and it is of great value in the field of medical biology research. However, at present, there is no high‐efficiency method for evaluating the genetic quality of Chinese hamsters. Here, we developed a novel Chinese hamster genetic quality detection system using single‐nucleotide polymorphism (SNP) markers. To find SNP loci, we conducted whole genome sequencing on 24 Chinese hamsters. Then, we employed an SNP locus screening criterion that we set up previously and initially screened 214 SNP loci with wide genome distribution and high polymorphism level. Subsequently, we developed the SNP detection system using a multitarget region capture technique based on second‐generation sequencing, and a 55 SNP panel for genetic evaluation of Chinese hamster populations was developed. PopGen.32. analysis results showed that the average effective allele number, Shannon index, observed heterozygosity, expected heterozygosity, average heterozygosity, polymorphism information, and other genetic parameters of Chinese hamster population A were higher than those in population B. Using scientific screening and optimization, we successfully developed a novel Chinese hamster SNP genetic detection system that can efficiently and accurately analyze the genetic quality of the Chinese hamster population.https://doi.org/10.1002/ame2.70006Chinese hamstergenetic analysisgenetic detectionsingle‐nucleotide polymorphism |
| spellingShingle | Minghe Sun Yafang Guo Zhengnan Ren Ang Song Jing Lu Changlong Li Jianyi Lv Meng Guo Xin Liu Xiaoyan Du Zhaoyang Chen Guohua Song Yan He Zhenwen Chen Xueyun Huo Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters Animal Models and Experimental Medicine Chinese hamster genetic analysis genetic detection single‐nucleotide polymorphism |
| title | Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters |
| title_full | Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters |
| title_fullStr | Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters |
| title_full_unstemmed | Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters |
| title_short | Development of a single‐nucleotide polymorphism panel genotyping system for genetic analysis of Chinese hamsters |
| title_sort | development of a single nucleotide polymorphism panel genotyping system for genetic analysis of chinese hamsters |
| topic | Chinese hamster genetic analysis genetic detection single‐nucleotide polymorphism |
| url | https://doi.org/10.1002/ame2.70006 |
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