Yingjie Chen, Kaikuo Wang, Qi Wang, Yiming Cao, Ran Zhao, Yan Zhang, Jiongtang Li
{"title":"鲤鱼鱼片氨基酸组成的基因组和转录组学分析。","authors":"Yingjie Chen, Kaikuo Wang, Qi Wang, Yiming Cao, Ran Zhao, Yan Zhang, Jiongtang Li","doi":"10.3390/ani15091335","DOIUrl":null,"url":null,"abstract":"<p><p>Fish are rich sources of amino acids (AAs), particularly human essential amino acids (HEAAs). Exploring the regulatory mechanisms behind the changes in the combined AA content in the fillet and enhancing the content of AAs, especially HEAAs, in fillets of farmed fish is crucial for meeting human nutritional needs. After hot acidic hydrolysis of 304 common carp fillets, we quantified the contents of 17 single AAs and 5 AA groups and observed significant variations among them. Except for Pro, 16 single AAs and all AA groups showed medium-to-high heritabilities over 0.2. Through a genome-wide association study (GWAS), we identified 1974 SNPs and candidate genes associated with at least one AA content. Using transcriptome data from groups with the highest and lowest contents for each AA, 7089 candidate genes were related to the concentrations of at least two AAs. For the total HEAA content, 121 SNPs and their associated genes preferred ATPase-coupled transmembrane transporter activity, and 4727 differentially expressed genes were enriched in cytokine activity, chemokine activity, oxidoreductase activity, and ion binding. With the optimal genomic selection programs and associated SNPs, the correlation between the actual AA contents and estimated breeding values was high and positive, ranging from 0.76 to 0.90. These findings revealed the major-effect processes and regulatory mechanisms modulating the differences in fillet AA contents. The genomic selection programs will guide the future selection of common carp with high AA contents.</p>","PeriodicalId":7955,"journal":{"name":"Animals","volume":"15 9","pages":""},"PeriodicalIF":2.7000,"publicationDate":"2025-05-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12070895/pdf/","citationCount":"0","resultStr":"{\"title\":\"Genomic and Transcriptomic Profiling of Amino Acid Compositions in Common Carp Fillets.\",\"authors\":\"Yingjie Chen, Kaikuo Wang, Qi Wang, Yiming Cao, Ran Zhao, Yan Zhang, Jiongtang Li\",\"doi\":\"10.3390/ani15091335\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>Fish are rich sources of amino acids (AAs), particularly human essential amino acids (HEAAs). Exploring the regulatory mechanisms behind the changes in the combined AA content in the fillet and enhancing the content of AAs, especially HEAAs, in fillets of farmed fish is crucial for meeting human nutritional needs. After hot acidic hydrolysis of 304 common carp fillets, we quantified the contents of 17 single AAs and 5 AA groups and observed significant variations among them. Except for Pro, 16 single AAs and all AA groups showed medium-to-high heritabilities over 0.2. Through a genome-wide association study (GWAS), we identified 1974 SNPs and candidate genes associated with at least one AA content. Using transcriptome data from groups with the highest and lowest contents for each AA, 7089 candidate genes were related to the concentrations of at least two AAs. For the total HEAA content, 121 SNPs and their associated genes preferred ATPase-coupled transmembrane transporter activity, and 4727 differentially expressed genes were enriched in cytokine activity, chemokine activity, oxidoreductase activity, and ion binding. With the optimal genomic selection programs and associated SNPs, the correlation between the actual AA contents and estimated breeding values was high and positive, ranging from 0.76 to 0.90. These findings revealed the major-effect processes and regulatory mechanisms modulating the differences in fillet AA contents. 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Genomic and Transcriptomic Profiling of Amino Acid Compositions in Common Carp Fillets.
Fish are rich sources of amino acids (AAs), particularly human essential amino acids (HEAAs). Exploring the regulatory mechanisms behind the changes in the combined AA content in the fillet and enhancing the content of AAs, especially HEAAs, in fillets of farmed fish is crucial for meeting human nutritional needs. After hot acidic hydrolysis of 304 common carp fillets, we quantified the contents of 17 single AAs and 5 AA groups and observed significant variations among them. Except for Pro, 16 single AAs and all AA groups showed medium-to-high heritabilities over 0.2. Through a genome-wide association study (GWAS), we identified 1974 SNPs and candidate genes associated with at least one AA content. Using transcriptome data from groups with the highest and lowest contents for each AA, 7089 candidate genes were related to the concentrations of at least two AAs. For the total HEAA content, 121 SNPs and their associated genes preferred ATPase-coupled transmembrane transporter activity, and 4727 differentially expressed genes were enriched in cytokine activity, chemokine activity, oxidoreductase activity, and ion binding. With the optimal genomic selection programs and associated SNPs, the correlation between the actual AA contents and estimated breeding values was high and positive, ranging from 0.76 to 0.90. These findings revealed the major-effect processes and regulatory mechanisms modulating the differences in fillet AA contents. The genomic selection programs will guide the future selection of common carp with high AA contents.
AnimalsAgricultural and Biological Sciences-Animal Science and Zoology
CiteScore
4.90
自引率
16.70%
发文量
3015
审稿时长
20.52 days
期刊介绍:
Animals (ISSN 2076-2615) is an international and interdisciplinary scholarly open access journal. It publishes original research articles, reviews, communications, and short notes that are relevant to any field of study that involves animals, including zoology, ethnozoology, animal science, animal ethics and animal welfare. However, preference will be given to those articles that provide an understanding of animals within a larger context (i.e., the animals'' interactions with the outside world, including humans). There is no restriction on the length of the papers. Our aim is to encourage scientists to publish their experimental and theoretical research in as much detail as possible. Full experimental details and/or method of study, must be provided for research articles. Articles submitted that involve subjecting animals to unnecessary pain or suffering will not be accepted, and all articles must be submitted with the necessary ethical approval (please refer to the Ethical Guidelines for more information).