Background: Largemouth bass (Micropterus salmoides), a valuable freshwater fish species, has experienced significant genetic decline in China due to prolonged domestic breeding and limited introduction of new genetic material. It is necessary to have a comprehensive understanding of the genetic status of largemouth bass populations in China. Method: In this study, we conducted population genetic analyses on nine cultured largemouth bass populations using whole genome resequencing. Results: A total of 3.23 Tb of clean bases were generated, with average Q20 and Q30 values of 98.17% and 94.25%, respectively, and 2,140,534 high-quality SNPs were obtained. Relatively high genetic diversity was observed across all populations. Combined with linkage disequilibrium (LD) patterns, the Wanlu (WL) population possessed the highest genetic diversity, and the Longyou (LY) population possessed the lowest genetic diversity. Additionally, population structure analyses, including pairwise F-statistics, phylogenetic trees, PCA, and admixture analysis, revealed significant genetic differentiation, particularly between the WL, LY, and other 7 populations, while also indicating the occurrence of a common admixture event. Finally, TreeMix inferred migration events from the WL to the Chuanlu (CL) population and from the Taiwan breeding population (TWL) to the Guanglu (GL) population. Conclusions: These findings provide a critical foundation for developing conservation and breeding strategies for largemouth bass in China.

The Bighead carp (Hypophthalmichthys nobilis), a primary freshwater aquaculture species in China, faces challenges due to over-exploitation and environmental changes. We leveraged RAD-seq to perform a comprehensive population genetic analysis on 14 H. nobilis populations sampled from the Yangtze River (13 populations) and the Marseilles Reach of the Illinois River (one population). Analysis of genetic diversity showed that different parameters demonstrated varied inferences, and notably, Zhongxian (ZX2), Wanhzou (WZ2), Yangzhou hatchery (YZYZ), Yangzhou (YZ), and Taihu (TH) populations showed apparent heterozygote deficiency. Linkage disequilibrium (LD) analysis exhibited a trend of higher linkage disequilibrium in populations from the upper reaches of the Yangtze River, followed by those from the middle reaches and then those from the lower reaches. Additionally, the reconstructed polygenetic tree and PCA plot clustered all populations into 2 major subgroups, while the results of structure analysis indicated 4 ancestors. The pairwise F_ST values ranged from 0 to 0.5530. Among these, high F_ST values (0.1931–0.5530) were only observed between populations WZ2, YZ, YZYZ, and the remaining 11 populations. Furthermore, genetic bottlenecks were observed in all populations 20–30 thousand years ago. Overall, the research offers insights essential for genetic management practices for sustainable aquaculture and biodiversity conservation of bighead carp.

The giant freshwater prawn (Macrobrachium rosenbergii, GFP) is a highly valuable crustacean species in global aquaculture. However, a social hierarchy exists among the distinct male morphotypes, specifically blue-clawed males (BC), orange-clawed males (OC), and small males (SMs). In this study, to identify the specific metabolites among BC, OC, and SM, hemolymph samples were collected for the untargeted liquid chromatography–mass spectrometry metabolomics (LC–MS). A total of 172, 546, and 578 significantly different metabolites (SDMs) were identified in OC vs. BC, SM vs. BC, and SM vs. OC, respectively. Notably, creatine and glutamate in BC males likely enhance their aggressive behavior through improved energy metabolism. In the SM group, the up-regulation of prostaglandin E3, testosterone, and arachidonic acid may lead to premature gonadal maturation and enhance immunity. Serotonin, Glu-Pro, and pentanoylcarnitine detected in OC males reflect their physiological need for rapid growth and adaptation to social behaviors. In the SM group, the up-regulation of prostaglandin E3, arachidonic acid, and testosterone may promote premature gonadal maturation and enhance immunodominance. These findings will enhance the understanding of the physiological basis of social hierarchy formation in male GFPs from a metabolomics perspective.