Genetic Diversity and Core Germplasm Identification in <i>Penaeus japonicus</i> Using Whole-Genome Resequencing.

ABSTRACT: The kuruma shrimp (Penaeus japonicus), a globally high-value aquaculture species, faces critical challenges in sustainable development due to genetic diversity degradation and declining disease resistance. This study employed whole-genome resequencing (WGRS) to systematically assess genetic diversity, population structure, and core germplasm characteristics across 20 geographically distinct populations from Zhejiang, Fujian (China), and introduced Japanese stocks. Using 343.40 Gb of high-quality sequencing data (average depth: 12.44×), we identified 9,146,248 single nucleotide polymorphisms (SNPs), with 6.32% located in exon regions, while intergenic (56.75%) and intronic regions (30.99%) showed the highest polymorphism density. Principal component analysis (PCA) and phylogenetic tr

SUBMITTER: Zhang D 

PROVIDER: S-EPMC12466631 | biostudies-literature | 2025 Sep

REPOSITORIES: biostudies-literature