{"title":"解密遗传景观:长乐鹅基因组特征的洞察力。","authors":"Hao Chen, Yan Wu, Yihao Zhu, Keyi Luo, Sumei Zheng, Hongbo Tang, Rui Xuan, Yuxuan Huang, Jiawei Li, Rui Xiong, Xinyan Fang, Lei Wang, Yujie Gong, Junjie Miao, Jing Zhou, Hongli Tan, Yanan Wang, Liping Wu, Jing Ouyang, Min Huang, Xueming Yan","doi":"10.1111/eva.13768","DOIUrl":null,"url":null,"abstract":"<p>The Changle goose (CLG), a Chinese indigenous breed, is celebrated for its adaptability, rapid growth, and premium meat quality. Despite its agricultural value, the exploration of its genomic attributes has been scant. Our study entailed whole-genome resequencing of 303 geese across CLG and five other Chinese breeds, revealing distinct genetic diversity metrics. We discovered significant migration events from Xingguo gray goose to CLG and minor gene flow between them. We identified genomic regions through selective sweep analysis, correlating with CLG's unique traits. An elevated inbreeding coefficient in CLG, alongside reduced heterozygosity and rare single nucleotide polymorphisms (R<sub>SNPs</sub>), suggests a narrowed genetic diversity. Genomic regions related to reproduction, meat quality, and growth were identified, with the <i>GATA3</i> gene showing strong selection signals for meat quality. A non-synonymous mutation in the <i>Sloc2a1</i> gene, which is associated with reproductive traits in the CLG, exhibited significant differences in allelic frequency. The roles of <i>CD82</i>, <i>CDH8</i>, and <i>PRKAB1</i> in growth and development, alongside <i>FABP4</i>, <i>FAF1</i>, <i>ESR1</i>, and <i>AKAP12</i> in reproduction, were highlighted. Additionally, <i>Cdkal1</i> and <i>Mfsd14a</i> may influence meat quality. This comprehensive genetic analysis underpins the unique genetic makeup of CLG, providing a basis for its conservation and informed breeding strategies.</p>","PeriodicalId":168,"journal":{"name":"Evolutionary Applications","volume":null,"pages":null},"PeriodicalIF":3.5000,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11340016/pdf/","citationCount":"0","resultStr":"{\"title\":\"Deciphering the Genetic Landscape: Insights Into the Genomic Signatures of Changle Goose\",\"authors\":\"Hao Chen, Yan Wu, Yihao Zhu, Keyi Luo, Sumei Zheng, Hongbo Tang, Rui Xuan, Yuxuan Huang, Jiawei Li, Rui Xiong, Xinyan Fang, Lei Wang, Yujie Gong, Junjie Miao, Jing Zhou, Hongli Tan, Yanan Wang, Liping Wu, Jing Ouyang, Min Huang, Xueming Yan\",\"doi\":\"10.1111/eva.13768\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>The Changle goose (CLG), a Chinese indigenous breed, is celebrated for its adaptability, rapid growth, and premium meat quality. Despite its agricultural value, the exploration of its genomic attributes has been scant. Our study entailed whole-genome resequencing of 303 geese across CLG and five other Chinese breeds, revealing distinct genetic diversity metrics. We discovered significant migration events from Xingguo gray goose to CLG and minor gene flow between them. We identified genomic regions through selective sweep analysis, correlating with CLG's unique traits. An elevated inbreeding coefficient in CLG, alongside reduced heterozygosity and rare single nucleotide polymorphisms (R<sub>SNPs</sub>), suggests a narrowed genetic diversity. Genomic regions related to reproduction, meat quality, and growth were identified, with the <i>GATA3</i> gene showing strong selection signals for meat quality. A non-synonymous mutation in the <i>Sloc2a1</i> gene, which is associated with reproductive traits in the CLG, exhibited significant differences in allelic frequency. The roles of <i>CD82</i>, <i>CDH8</i>, and <i>PRKAB1</i> in growth and development, alongside <i>FABP4</i>, <i>FAF1</i>, <i>ESR1</i>, and <i>AKAP12</i> in reproduction, were highlighted. Additionally, <i>Cdkal1</i> and <i>Mfsd14a</i> may influence meat quality. This comprehensive genetic analysis underpins the unique genetic makeup of CLG, providing a basis for its conservation and informed breeding strategies.</p>\",\"PeriodicalId\":168,\"journal\":{\"name\":\"Evolutionary Applications\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":3.5000,\"publicationDate\":\"2024-08-22\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11340016/pdf/\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Evolutionary Applications\",\"FirstCategoryId\":\"99\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1111/eva.13768\",\"RegionNum\":2,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"EVOLUTIONARY BIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Evolutionary Applications","FirstCategoryId":"99","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1111/eva.13768","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"EVOLUTIONARY BIOLOGY","Score":null,"Total":0}
Deciphering the Genetic Landscape: Insights Into the Genomic Signatures of Changle Goose
The Changle goose (CLG), a Chinese indigenous breed, is celebrated for its adaptability, rapid growth, and premium meat quality. Despite its agricultural value, the exploration of its genomic attributes has been scant. Our study entailed whole-genome resequencing of 303 geese across CLG and five other Chinese breeds, revealing distinct genetic diversity metrics. We discovered significant migration events from Xingguo gray goose to CLG and minor gene flow between them. We identified genomic regions through selective sweep analysis, correlating with CLG's unique traits. An elevated inbreeding coefficient in CLG, alongside reduced heterozygosity and rare single nucleotide polymorphisms (RSNPs), suggests a narrowed genetic diversity. Genomic regions related to reproduction, meat quality, and growth were identified, with the GATA3 gene showing strong selection signals for meat quality. A non-synonymous mutation in the Sloc2a1 gene, which is associated with reproductive traits in the CLG, exhibited significant differences in allelic frequency. The roles of CD82, CDH8, and PRKAB1 in growth and development, alongside FABP4, FAF1, ESR1, and AKAP12 in reproduction, were highlighted. Additionally, Cdkal1 and Mfsd14a may influence meat quality. This comprehensive genetic analysis underpins the unique genetic makeup of CLG, providing a basis for its conservation and informed breeding strategies.
期刊介绍:
Evolutionary Applications is a fully peer reviewed open access journal. It publishes papers that utilize concepts from evolutionary biology to address biological questions of health, social and economic relevance. Papers are expected to employ evolutionary concepts or methods to make contributions to areas such as (but not limited to): medicine, agriculture, forestry, exploitation and management (fisheries and wildlife), aquaculture, conservation biology, environmental sciences (including climate change and invasion biology), microbiology, and toxicology. All taxonomic groups are covered from microbes, fungi, plants and animals. In order to better serve the community, we also now strongly encourage submissions of papers making use of modern molecular and genetic methods (population and functional genomics, transcriptomics, proteomics, epigenetics, quantitative genetics, association and linkage mapping) to address important questions in any of these disciplines and in an applied evolutionary framework. Theoretical, empirical, synthesis or perspective papers are welcome.