Development of Disease-Resistance-Associated Microsatellite DNA Markers for Selective Breeding of Tilapia (Oreochromis spp.) Farmed in Taiwan

Chen, Che-Chun; Huang, Chang-Wen; Lin, Chung-Yen; Ho, Chia-Hui; Pham, Hong Nhat; Hsu, Te‐Hua; Lin, Tzu-Tang; Chen, Rong-Hwa; Yang, Shuxiang; Chang, Chin-I; Gong, Hong‐Yi

doi:10.3390/genes13010099

Cited by 13 publications

(8 citation statements)

References 84 publications

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“…Population genetic differentiation has been found in parasitic sea lice ( Lepeophtheirus salmonis ) on Atlantic and Pacific salmonids from wild and farmed fish, by analyses of microsatellite DNA [ 577 ]. Microsatellite identification coupled with SNP discovery have been used recently for mapping QTL for such traits as cold-tolerance and disease resistance of farmed tilapia [ 578 , 579 ], and for identifying the occurrence of skeletal abnormalities in gilthead seabream [ 580 ]. Nevertheless, it should be noted that SNP markers are increasingly used for research related to QTL.…”

Section: Qtl Identificationmentioning

confidence: 99%

Microsatellites as Molecular Markers with Applications in Exploitation and Conservation of Aquatic Animal Populations

Wenne

2023

Genes

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A large number of species and taxa has been studied for genetic polymorphism. Microsatellites have been known as hypervariable neutral molecular markers with the highest resolution power in comparison with any other markers. However, the discovery of a new type of molecular marker—single nucleotide polymorphism (SNP) has put the existing applications of microsatellites to the test. To ensure good resolution power in studies of populations and individuals, a number of microsatellite loci from 14 to 20 was often used, which corresponds to about 200 independent alleles. Recently, these numbers have tended to be increased by the application of genomic sequencing of expressed sequence tags (ESTs), and the choice of the most informative loci for genotyping depends on the aims of research. Examples of successful applications of microsatellite molecular markers in aquaculture, fisheries, and conservation genetics in comparison with SNPs have been summarized in this review. Microsatellites can be considered superior markers in such topics as kinship and parentage analysis in cultured and natural populations, the assessment of gynogenesis, androgenesis and ploidization. Microsatellites can be coupled with SNPs for mapping QTL. Microsatellites will continue to be used in research on genetic diversity in cultured stocks, and also in natural populations as an economically advantageous genotyping technique.

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Section: Qtl Identificationmentioning

confidence: 99%

Microsatellites as Molecular Markers with Applications in Exploitation and Conservation of Aquatic Animal Populations

Wenne

2023

Genes

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“…Disease resistance tilapia has also been developed through selective breeding using microsatellite markers 24 . Microsatellite markers associated with cold tolerance in Oreochromis niloticus have been screened and identified 25 .…”

Section: Introductionmentioning

confidence: 99%

Genetic Similarity Levels in Nile Tilapia of Some Nigerian Water Bodies Using SSR Markers

T.O.¹,

Anumudu²

2023

J. of Fisheries and Aquatic Science

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Background and Objective: In Nigeria, there is a paucity of information on the genetic similarity among wild Oreochromis niloticus species. Though there are assertions based on morphological observation, by fish farmers and some researchers of fisheries that most of these species in the wild are no longer pure and possibly hybridizing. Most molecular assessments are usually among tilapia species with limited sample coverage of O. niloticus species or of a lower marker. This was a preliminary investigation of the genetic similarity of Oreochromis niloticus from selected water bodies along the River Niger, in six states of Nigeria, using SSR markers. Materials and Methods: Similarity levels among Oreochromis niloticus from water bodies in six states in Nigeria were assessed using seven SSR markers with their various primers (UNH 208, 143, 104, 022, 119, 180 and 156), which were selected from the NCBI database. Only UNH 104, UNH143 and UNH 022 produced DNA amplifications. Phylogenetic representation using UPGMA cluster analysis produced a dendrogram with a total of 118 clusters grouped into 7 major clusters with up to 8 subgroups, indicating different degrees of variation and similarities. Results: Genetic similarities were observed at various coefficient levels, possibly due to hybridization. At the coefficient level of 1 or 100%, 39 clusters occurred with different samples on each cluster indicating they are genetically the same. Samples from South Delta (SSD), South West Oyo (SWO) and North West Kebbi (NWK) states were always present in each cluster at this coefficient level. A lot of migration is likely taking place among these fishes. The seven major clusters A, B, C, D, E, F and G at varying degrees of similarity 73, 67, 64, 59, 56, 48 and 44% showed the decreasing order of genetic similarity. Conclusion: These data supported the view that the very high similarity between tilapia from these water bodies stems from its highly prolific nature which may have led to a high probability of hybridization between species and strains. The genetic distance between strains may suggest that there are varying levels of genetic variability among O. niloticus in Nigeria water bodies under study.

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“…They are now widely used in fisheries and aquaculture research (Hsu et al, 2022; Wong et al, 2022; You et al, 2020). Molecular markers can be employed to track the inheritance of traits within populations, providing valuable information for breeding programs (Chen et al, 2022; Chu et al, 2021; Hsu et al, 2021). The successful application of molecular markers in various aquaculture species has facilitated the development of improved strains with enhanced growth rates and other desirable traits (You et al, 2020; Wong et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

Utilizing ISSRseq genotyping to assist growth selection in tomato grouper (Cephalopholis sonnerati) without broodstock information

Hsu,

Chu,

Gong

et al. 2023

J World Aquaculture Soc

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Growth selection in fish is essential for aquaculture; however, long generation times and artificial breeding limitations present challenges for breeding endeavors. The tomato grouper (Cephalopholis sonnerati) is an emerging aquaculture species with a generation cycle of at least 5 to 10 years. Mixed culture of broodstocks and natural mating are commonly employed in hatcheries. To expedite the selection process for tomato grouper, we utilized ISSRseq technology for assisted future growth selection. After 6 months of rearing, we selected 48 individuals, including 24 fast‐growing and 24 slow‐growing individuals (representing the top and bottom 10% of samples). These samples produced 932 SNPs. Although specific broodstock pairing information is unavailable, our results suggest that these fry likely originated from multiple broodstock exhibiting considerable diversity. Further analysis of genetic relationships among individuals revealed three main clades. One clade contained a higher proportion of faster‐growing individuals (80%), while another featured a lower proportion of rapidly growing individuals (28.6%). Through the relatedness network and further exclusion of individuals, the faster‐growth clade comprised 92.3% of fast‐growing individuals. The faster‐growth clade is appropriate for further development into a high‐growth strain. Our findings demonstrate that molecular markers can advance population selective breeding to family selection in aquaculture breeding research.

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Development of Disease-Resistance-Associated Microsatellite DNA Markers for Selective Breeding of Tilapia (Oreochromis spp.) Farmed in Taiwan

Cited by 13 publications

References 84 publications

Microsatellites as Molecular Markers with Applications in Exploitation and Conservation of Aquatic Animal Populations

Microsatellites as Molecular Markers with Applications in Exploitation and Conservation of Aquatic Animal Populations

Genetic Similarity Levels in Nile Tilapia of Some Nigerian Water Bodies Using SSR Markers

Utilizing ISSRseq genotyping to assist growth selection in tomato grouper (Cephalopholis sonnerati) without broodstock information

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