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, Md Asaduzzaman, Yeong Yik Sung, Zhanjiang Liu, Patrick Sorgeloos, Yves Van de Peer, Nor Afiqah-Aleng

Research output: Contribution to journalReview articlepeer-review

16 Scopus citations


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.

Original languageEnglish (US)
Article number737633
StatePublished - Feb 15 2022


  • Genome sequencing
  • Next-generation sequencing (NGS)
  • Omics technologies
  • Population genomics
  • Selective breeding

ASJC Scopus subject areas

  • Aquatic Science


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