We used restriction-site associated DNA sequencing for SNP discovery and genotyping of known-sex green sunfish Lepomis cyanellus DNA samples to search for sex-diagnostic single nucleotide polymorphisms (SNPs) and restriction-site associated sequences present in one sex and absent in the other. The bioinformatic analyses discovered candidate SNPs and sex-specific restriction-site associated sequences that fit patterns of male or female heterogametic sex determination systems. However, when primers were developed and tested, no candidates reliably identified phenotypic sex. The top performing SNP candidate (ZW_218) correlated with phenotypic sex 63.0% of the time and the presence-absence loci universally amplified in both sexes. We recommend further investigations that interrogate a larger fraction of the L. cyanellus genome. Additionally, studies on the effect of temperature and rearing density on sex determination, as well as breeding of sex-reversed individuals, could provide more insights into the sex determination system of L. cyanellus.
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http://dx.doi.org/10.1111/jfb.15063 | DOI Listing |
Mol Breed
January 2025
Department of Science and Technology, Graduate School of Medicine, Science and Technology, Shinshu University, Minamiminowa, Nagano, 399-4598 Japan.
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Biotechnology and Nuclear Technology Research Institute, Sichuan Academy of Agricultural Sciences, Chengdu, 610011, China.
Sweetpotato (Ipomoea batatas L.), an important food and industrial crop in the world, has a highly heterozygous hexaploid genome, making the development of single nucleotide polymorphism (SNP) markers challenging. Identifying SNP loci and developing practical SNP markers are crucial for genomic and genetic research on sweetpotato.
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Division of Animal Genetics and Breeding, ICAR-National Dairy Research Institute, Karnal, Haryana, 132001, India.
Genome-wide association studies (GWAS) offer potential for discovering genomic regions that can be exploited to increase milk production. However, available GWAS and single nucleotide polymorphism (SNP) datasets are heavily skewed towards taurine breeds, which restricts their utility for genomic research in indicine cattle breeds. This study conducts a GWAS on the Badri breed of Indicine cattle to estimate variance components and identify significant variants associated with milk composition traits, utilizing double digest restriction-site associated DNA (ddRAD) sequencing data.
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Institute of Bast Fiber Crops, Chinese Academy of Agricultural Sciences, 348 West Xianjiahu Road, Changsha, Hunan, China.
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View Article and Find Full Text PDFBMC Genomics
December 2024
Institute of Aquaculture, University of Stirling, Stirling, Scotland, UK.
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