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<p>Expanding brackish and semi-brackish water aquaculture is an essential strategy to improve land-use efficiency and alleviate spatial constraints in freshwater aquaculture. However, current efforts are constrained by the limited availability of high-quality, salt-tolerant fish species. Grass carp (<i>Ctenopharyngodon idella</i>), a widely farmed freshwater species in China, has had limited success in brackish-water environments due to its low tolerance to salinity. In this study, genome-wide association analysis (GWAS) was conducted on 60 grass carp individuals that survived under two salinity conditions (10‰ and 15‰). The study identified 12 significant SNPs across seven chromosomes and annotated 71 candidate genes. Among these, <i>nos1</i>, <i>slc26a3</i> were closely associated with osmoregulation and ion transport. Enrichment analyses indicated that salinity tolerance in grass carp is primarily related to immune stress responses, membrane remodeling, and energy metabolism. This study comprehensively identified genetic loci and candidate genes associated with salinity tolerance in grass carp at the genome-wide level, providing valuable information for developing molecular markers and improving salt tolerance in this species.</p>

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Genome-wide association study identifies candidate genes and functional pathways associated with salinity tolerance in grass carp (Ctenopharyngodon idella)

  • 期刊论文

  • 发表日期：

    2026年4月3日

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  • Xinbin Hou,
  • Binglin Chen,
  • Zhiying Zou,
  • Jinglin Zhu,
  • Dayu Li,
  • Jie Yu,
  • Hong Yang,
  • Wei Xiao

摘要

Expanding brackish and semi-brackish water aquaculture is an essential strategy to improve land-use efficiency and alleviate spatial constraints in freshwater aquaculture. However, current efforts are constrained by the limited availability of high-quality, salt-tolerant fish species. Grass carp (Ctenopharyngodon idella), a widely farmed freshwater species in China, has had limited success in brackish-water environments due to its low tolerance to salinity. In this study, genome-wide association analysis (GWAS) was conducted on 60 grass carp individuals that survived under two salinity conditions (10‰ and 15‰). The study identified 12 significant SNPs across seven chromosomes and annotated 71 candidate genes. Among these, nos1, slc26a3 were closely associated with osmoregulation and ion transport. Enrichment analyses indicated that salinity tolerance in grass carp is primarily related to immune stress responses, membrane remodeling, and energy metabolism. This study comprehensively identified genetic loci and candidate genes associated with salinity tolerance in grass carp at the genome-wide level, providing valuable information for developing molecular markers and improving salt tolerance in this species.