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Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program

Li Lian Wong, Siti Aisyah Razali, Zulaikha Mat Deris, Muhd Danish-Daniel, Min Pau Tan, Siti Azizah Mohd Nor, Hongyu Ma, Wang Min, Liang Yantao Liang Yantao, Md Asaduzzaman, et al.
(2022) AQUACULTURE. 548(1).
Author
Organization
Abstract
High-throughput sequencing technologies have expanded gene-based to genome-wide research in aquaculture species. Several techniques adopting the Second Generation Sequencing (SGS), Third Generation Sequencing (TGS) platforms and/or hybrid genome assemblies have been widely employed in various aquaculture research areas including general breeding program, disease and health management, sex determination and reproduction biology, environmental stress response, nutrigenomics, morphological appearance, and meat quality/texture. Notably, the application of these novel sequencing technologies has generated Quantitative Trait Loci (QTL) and novel genes associated with commercially important production traits, which are useful for essential processes in selective breeding programs such as population genomics evaluation, Marker-Assisted Selection (MAS) and Genomic Selection (GS). These genomic approaches are also used as genetic traceability tools for seafood fraud assessment and tracking of farm escapees for wild stock conservation. Genomic data generated by these platforms could aid in establishing proper breeding strategies for more profitable and sustainable aquaculture.
Keywords
Selective breeding, Genome sequencing, Omics technologies, Population genomics, Next-generation sequencing (NGS), QUANTITATIVE-TRAIT LOCI, INFECTIOUS PANCREATIC NECROSIS, SINGLE-NUCLEOTIDE POLYMORPHISMS, FLOUNDER PARALICHTHYS-OLIVACEUS, TURBOT SCOPHTHALMUS-MAXIMUS, BULKED-SEGREGANT ANALYSIS, CHARR SALVELINUS-ALPINUS, GENOME-WIDE ASSOCIATION, GROWTH-RELATED TRAITS, ATLANTIC SALMON

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Citation

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MLA
Wong, Li Lian, et al. “Application of Second-Generation Sequencing (SGS) and Third Generation Sequencing (TGS) in Aquaculture Breeding Program.” AQUACULTURE, vol. 548, no. 1, 2022, doi:10.1016/j.aquaculture.2021.737633.
APA
Wong, L. L., Razali, S. A., Deris, Z. M., Danish-Daniel, M., Tan, M. P., Nor, S. A. M., … Afiqah-Aleng, N. (2022). Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program. AQUACULTURE, 548(1). https://doi.org/10.1016/j.aquaculture.2021.737633
Chicago author-date
Wong, Li Lian, Siti Aisyah Razali, Zulaikha Mat Deris, Muhd Danish-Daniel, Min Pau Tan, Siti Azizah Mohd Nor, Hongyu Ma, et al. 2022. “Application of Second-Generation Sequencing (SGS) and Third Generation Sequencing (TGS) in Aquaculture Breeding Program.” AQUACULTURE 548 (1). https://doi.org/10.1016/j.aquaculture.2021.737633.
Chicago author-date (all authors)
Wong, Li Lian, Siti Aisyah Razali, Zulaikha Mat Deris, Muhd Danish-Daniel, Min Pau Tan, Siti Azizah Mohd Nor, Hongyu Ma, Wang Min, Liang Yantao Liang Yantao, Md Asaduzzaman, Yeong Yik Sung, Zhanjiang Liu, Patrick Sorgeloos, Yves Van de Peer, and Nor Afiqah-Aleng. 2022. “Application of Second-Generation Sequencing (SGS) and Third Generation Sequencing (TGS) in Aquaculture Breeding Program.” AQUACULTURE 548 (1). doi:10.1016/j.aquaculture.2021.737633.
Vancouver
1.
Wong LL, Razali SA, Deris ZM, Danish-Daniel M, Tan MP, Nor SAM, et al. Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program. AQUACULTURE. 2022;548(1).
IEEE
[1]
L. L. Wong et al., “Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program,” AQUACULTURE, vol. 548, no. 1, 2022.
@article{8738613,
  abstract     = {{High-throughput sequencing technologies have expanded gene-based to genome-wide research in aquaculture species. Several techniques adopting the Second Generation Sequencing (SGS), Third Generation Sequencing (TGS) platforms and/or hybrid genome assemblies have been widely employed in various aquaculture research areas including general breeding program, disease and health management, sex determination and reproduction biology, environmental stress response, nutrigenomics, morphological appearance, and meat quality/texture. Notably, the application of these novel sequencing technologies has generated Quantitative Trait Loci (QTL) and novel genes associated with commercially important production traits, which are useful for essential processes in selective breeding programs such as population genomics evaluation, Marker-Assisted Selection (MAS) and Genomic Selection (GS). These genomic approaches are also used as genetic traceability tools for seafood fraud assessment and tracking of farm escapees for wild stock conservation. Genomic data generated by these platforms could aid in establishing proper breeding strategies for more profitable and sustainable aquaculture.}},
  articleno    = {{737633}},
  author       = {{Wong, Li Lian and Razali, Siti Aisyah and Deris, Zulaikha Mat and Danish-Daniel, Muhd and Tan, Min Pau and Nor, Siti Azizah Mohd and Ma, Hongyu and Min, Wang and Liang Yantao, Liang Yantao and Asaduzzaman, Md and Sung, Yeong Yik and Liu, Zhanjiang and Sorgeloos, Patrick and Van de Peer, Yves and Afiqah-Aleng, Nor}},
  issn         = {{0044-8486}},
  journal      = {{AQUACULTURE}},
  keywords     = {{Selective breeding,Genome sequencing,Omics technologies,Population genomics,Next-generation sequencing (NGS),QUANTITATIVE-TRAIT LOCI,INFECTIOUS PANCREATIC NECROSIS,SINGLE-NUCLEOTIDE POLYMORPHISMS,FLOUNDER PARALICHTHYS-OLIVACEUS,TURBOT SCOPHTHALMUS-MAXIMUS,BULKED-SEGREGANT ANALYSIS,CHARR SALVELINUS-ALPINUS,GENOME-WIDE ASSOCIATION,GROWTH-RELATED TRAITS,ATLANTIC SALMON}},
  language     = {{eng}},
  number       = {{1}},
  pages        = {{20}},
  title        = {{Application of second-generation sequencing (SGS) and third generation sequencing (TGS) in aquaculture breeding program}},
  url          = {{http://dx.doi.org/10.1016/j.aquaculture.2021.737633}},
  volume       = {{548}},
  year         = {{2022}},
}
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