title: Development of pedigree classification using microsatellite and mitochondrial markers for Giant grouper broodstock (Epinephelus lanceolatus) management in Taiwan.
abstract: Most giant groupers in the market are derived from inbred stock. Inbreeding can cause trait depression, compromising the animals' fitness and disease resistance, obligating farmers to apply increased amounts of drugs. In order to solve this problem, a pedigree classification method is needed. Here, microsatellite and mitochondrial DNA were used as genetic markers to analyze the genetic relationships among giant grouper broodstocks. The 776-bp fragment of high polymorphic mitochondrial D-loop sequence was selected for measuring sibling relatedness. In a sample of 118 giant groupers, 42 haplotypes were categorized, with nucleotide diversity (π) of 0.00773 and haplotype diversity (HD) of 0.983. Furthermore, microsatellites were used for investigation of parentage. Six out of 33 microsatellite loci were selected as markers based on having a high number of alleles and compliance with Hardy-Weinberg equilibrium. Microsatellite profiles based on these loci provide high variability with low combined non-exclusion probability, permitting practical use in aquaculture. The method described here could be used to improve grouper broodstock management and lower the chances of inbreeding. This approach is expected to lead to production of higher quality groupers with higher disease resistance, thereby reducing the need for drug application.
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. shoujer@gmail.com.
authors.forename: Hsiao-Che
authors.initials: HC
authors.lastname: Kuo
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. samuel0801@msn.com.
authors.forename: Hao-Hsuan
authors.initials: HH
authors.lastname: Hsu
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. cheeshinc@gmail.com.
authors.forename: Chee Shin
authors.initials: CS
authors.lastname: Chua
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. nnigdd@gmail.com.
authors.forename: Ting-Yu
authors.initials: TY
authors.lastname: Wang
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. ymc868@yahoo.com.tw.
authors.forename: Young-Mao
authors.initials: YM
authors.lastname: Chen
authors.affiliation: Laboratory of Molecular Genetics, Institute of Biotechnology, College of Bioscience and Biotechnology, National Cheng Kung University, Tainan 70101, Taiwan. ibcty@mail.ncku.edu.tw.
authors.forename: Tzong-Yueh
authors.initials: TY
authors.lastname: Chen
mesh_terms: D000818:Animals; D017756:Aquaculture / Q000379:methods*; D030541:Databases, Genetic; D005399:Fishes / Q000145:classification* / Q000235:genetics*; D005819:Genetic Markers; D006239:Haplotypes / Q000235:genetics; D007178:Inbreeding; D018895:Microsatellite Repeats / Q000235:genetics*; D008928:Mitochondria / Q000235:genetics* / Q000378:metabolism; D013624:Taiwan
chemical_list: D005819:Genetic Markers