Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn)
Male hybrid oriental river prawns grow significantly faster than hybrid females. In this study, the growth and sex traits of 181 individuals of <i>Macrobrachium nipponense</i> were recorded, and each individual genotype was evaluated using the 2b-RAD sequencing method. The genetic parame...
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MDPI AG
2023-03-01
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| author | Mengchao Wang Shubo Jin Shuai Liu Hongtuo Fu Yunfeng Zhao Li Jiang |
| author_facet | Mengchao Wang Shubo Jin Shuai Liu Hongtuo Fu Yunfeng Zhao Li Jiang |
| author_sort | Mengchao Wang |
| collection | DOAJ |
| description | Male hybrid oriental river prawns grow significantly faster than hybrid females. In this study, the growth and sex traits of 181 individuals of <i>Macrobrachium nipponense</i> were recorded, and each individual genotype was evaluated using the 2b-RAD sequencing method. The genetic parameters for growth and sex traits were estimated. A genome-wide association analysis (GWAS) of these traits was performed. In total, 18 growth-related SNPs were detected from 12 chromosomes using a mixed linear model. The most significant loci of weight are located on the position of the SNP (102638935, chromosome 13), which can explain 11.87% of the phenotypic variation. A total of 11 significant SNPs were detected on four chromosomes associated with sex trait (three on chromosome 4, one on chromosome 7 and seven on chromosome 17). The heritability of this trait is 0.8998 and belongs to the range of ultra-high heritability. Genetic correlations were prevalent among the 11 traits examined, the genetic coefficient between sex and body weight reached a significant level of −0.23. This study is the first GWAS for sex of binary and growth traits in oriental river prawn. Our results provide a set of markers for the genetic selection of growth traits and help us to further understand the genetic mechanisms of growth in <i>Macrobrachium nipponense</i>. |
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| spelling | doaj.art-885965caa5e34bd49fbf3d2eede3bbf62023-11-17T09:42:05ZengMDPI AGBiology2079-77372023-03-0112342910.3390/biology12030429Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn)Mengchao Wang0Shubo Jin1Shuai Liu2Hongtuo Fu3Yunfeng Zhao4Li Jiang5College of Fisheries and Life, Shanghai Ocean University, Shanghai 201306, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaCollege of Fisheries and Life, Shanghai Ocean University, Shanghai 201306, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaKey Laboratory of Aquatic Genomics, Ministry of Agriculture and Rural Affairs, Beijing Key Laboratory of Fishery Biotechnology, Chinese Academy of Fishery Sciences, Beijing 100141, ChinaKey Laboratory of Aquatic Genomics, Ministry of Agriculture and Rural Affairs, Beijing Key Laboratory of Fishery Biotechnology, Chinese Academy of Fishery Sciences, Beijing 100141, ChinaMale hybrid oriental river prawns grow significantly faster than hybrid females. In this study, the growth and sex traits of 181 individuals of <i>Macrobrachium nipponense</i> were recorded, and each individual genotype was evaluated using the 2b-RAD sequencing method. The genetic parameters for growth and sex traits were estimated. A genome-wide association analysis (GWAS) of these traits was performed. In total, 18 growth-related SNPs were detected from 12 chromosomes using a mixed linear model. The most significant loci of weight are located on the position of the SNP (102638935, chromosome 13), which can explain 11.87% of the phenotypic variation. A total of 11 significant SNPs were detected on four chromosomes associated with sex trait (three on chromosome 4, one on chromosome 7 and seven on chromosome 17). The heritability of this trait is 0.8998 and belongs to the range of ultra-high heritability. Genetic correlations were prevalent among the 11 traits examined, the genetic coefficient between sex and body weight reached a significant level of −0.23. This study is the first GWAS for sex of binary and growth traits in oriental river prawn. Our results provide a set of markers for the genetic selection of growth traits and help us to further understand the genetic mechanisms of growth in <i>Macrobrachium nipponense</i>.https://www.mdpi.com/2079-7737/12/3/429<i>Macrobrachium nipponense</i>GWASbinary traitheritabilitysex trait |
| spellingShingle | Mengchao Wang Shubo Jin Shuai Liu Hongtuo Fu Yunfeng Zhao Li Jiang Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) Biology <i>Macrobrachium nipponense</i> GWAS binary trait heritability sex trait |
| title | Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) |
| title_full | Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) |
| title_fullStr | Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) |
| title_full_unstemmed | Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) |
| title_short | Genome-Wide Association Study of Growth and Sex Traits Provides Insight into Heritable Mechanisms Underlying Growth Development of <i>Macrobrachium nipponense</i> (Oriental River Prawn) |
| title_sort | genome wide association study of growth and sex traits provides insight into heritable mechanisms underlying growth development of i macrobrachium nipponense i oriental river prawn |
| topic | <i>Macrobrachium nipponense</i> GWAS binary trait heritability sex trait |
| url | https://www.mdpi.com/2079-7737/12/3/429 |
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