Applications of Genome-Based Technologies in Aquaculture

A special issue of Fishes (ISSN 2410-3888). This special issue belongs to the section "Genetics and Biotechnology".

Deadline for manuscript submissions: 17 June 2026 | Viewed by 413

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Guest Editor
State Key Laboratory of Freshwater Ecology and Biotechnology, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
Interests: molecular breeding; goldfish; evolution; aquaculture; efficient breeding
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Special Issue Information

Dear Colleagues,

In recent years, the rapid advancement of genome-based technologies—from whole-genome sequencing and genotyping arrays to gene editing, transcriptomics, and epigenomics—has begun to fundamentally transform aquaculture science and practice. This Special Issue, “Applications of Genome-Based Technologies in Aquaculture,” aims to collect high-quality research and review articles that showcase the latest developments and practical implementations of genomic tools in aquatic species. We welcome contributions covering, but not limited to, genomic selection and breeding; functional genomics; genome-wide association studies (GWAS); CRISPR and other gene-editing applications; genomic insights into disease immunity, stress adaptation, and reproductive biology; and the integration of genomic data with aquaculture management and conservation strategies. Studies that address ethical considerations, economic impacts, or sustainability outcomes related to genomic innovations are also encouraged. We invite you to submit your original research or review manuscripts to this exciting collection.

Dr. Peng Yu
Guest Editor

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Keywords

  • genomics
  • selective breeding
  • genome editing
  • aquaculture genetics
  • genomic selection
  • molecular breeding
  • aquaculture
  • phenotype
  • genotype
  • multi-omics

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Published Papers (1 paper)

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Research

23 pages, 4364 KB  
Article
Integrative Transcriptome and GWAS Analyses Reveal Growth-Associated Molecular Architecture in Pacific Abalone (Haliotis discus hannai)
by Hyejung Jung, Eun Soo Noh, Hyejin Kim, Hee-Bok Park, Young-Su Seo, In Jun Hwang, Hee Jeong Kong, Jung-Ha Kang and Jungwook Park
Fishes 2026, 11(5), 293; https://doi.org/10.3390/fishes11050293 - 15 May 2026
Viewed by 179
Abstract
Pacific abalone (Haliotis discus hannai) is a widely cultured and economically important abalone species in aquaculture yet improving growth performance remains a major challenge for stable production. To clarify the molecular architecture associated with growth performance in Pacific abalone, we integrated [...] Read more.
Pacific abalone (Haliotis discus hannai) is a widely cultured and economically important abalone species in aquaculture yet improving growth performance remains a major challenge for stable production. To clarify the molecular architecture associated with growth performance in Pacific abalone, we integrated transcriptome and genome-wide association study (GWAS) data from high-growth and low-growth groups showing significant growth differences. Transcriptome profiles from hepatopancreas and mantle tissues were used to construct a co-expression network of 43,125 genes, summarized into 22 modules associated with tissue specificity and growth-related variation. In parallel, analysis of a custom 60K SNP array identified 67 significant growth-associated SNPs. Integration of these GWAS signals into the co-expression network revealed a core module most strongly correlated with growth index and enriched for SNP-derived candidate genes. Functional enrichment indicated that the core module was associated with proteostasis and growth-related signaling pathways, including insulin, Ras, and MAPK signaling. Protein–protein interaction analysis further identified 11 hub genes with high intramodular connectivity and direct interactions with SNP-derived genes, most of which participate in receptor-mediated and intracellular growth-regulatory functions. These findings provide an integrated molecular framework for growth performance in Pacific abalone and candidate targets for future molecular breeding strategies. Full article
(This article belongs to the Special Issue Applications of Genome-Based Technologies in Aquaculture)
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