The genus Aeromonas is ubiquitous in aquatic environments encompassing a broad range of fish and human pathogens. Aeromonas strains are known for their enhanced capacity to acquire and exchange antibiotic resistance genes and therefore, are frequently targeted as indicator bacteria for monitoring antimicrobial resistance in aquatic environments. This study evaluated temporal trends in Aeromonas diversity and antibiotic resistance in two adjacent semi-intensive aquaculture facilities to ascertain the effects of antibiotic treatment on antimicrobial resistance. In the first facility, sulfadiazine-trimethoprim was added prophylactically to fingerling stocks and water column-associated Aeromonas were monitored periodically over an 11-month fish fattening cycle to assess temporal dynamics in taxonomy and antibiotic resistance. In the second facility, Aeromonas were isolated from fish skin ulcers sampled over a 3-year period and from pond water samples to assess associations between pathogenic strains to those in the water column. A total of 1200 Aeromonas isolates were initially screened for sulfadiazine resistance and further screened against five additional antimicrobials. In both facilities, strong correlations were observed between sulfadiazine resistance and trimethoprim and tetracycline resistances, whereas correlations between sulfadiazine resistance and ceftriaxone, gentamicin, and chloramphenicol resistances were low. Multidrug resistant strains as well as sul1, tetA, and intI1 gene-harboring strains were significantly higher in profiles sampled during the fish cycle than those isolated prior to stocking and these genes were extremely abundant in the pathogenic strains. Five phylogenetically distinct Aeromonas clusters were identified using partial rpoD gene sequence analysis. Interestingly, prior to fingerling stocking the diversity of water column strains was high, and representatives from all five clusters were identified, including an A. salmonicida cluster that harbored all characterized fish skin ulcer samples. Subsequent to stocking, diversity was much lower and most water column isolates in both facilities segregated into an A. veronii-associated cluster. This study demonstrated a strong correlation between aquaculture, Aeromonas diversity and antibiotic resistance. It provides strong evidence for linkage between prophylactic and systemic use of antibiotics in aquaculture and the propagation of antibiotic resistance.

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Crossing Oreochromis niloticus (On) females with Oreochromis aureus (Oa) males results in allmale progeny that are essential for effective tilapia farming. However, a reproductive barrier between these species limits mating and mass-fry production. One approach to overcoming this barrier is to select parental stocks of mixed genetic backgrounds, which allow interspecific reproductive recognition, while closely maintaining the genetic profiles for sexdetermination (SD) of the respective purebred species. Here, we test this approach in a data set of 160 On 9 Oa spawns of 109 male and 100 female parents randomly collected from admixed stocks, and genotyped for microsatellite markers representing the known SD loci on linkage groups (LGs) 1, 3, and 23. Following crossbreeding, the most significant paternal effects on male proportions in progeny were found for LG1-BYL018 (P < 2 9 10 À32 ) and for LG3-UNH168 9 LG23-UNH898 interaction (P < 1 9 10 À17 ; R 2 = 0.98). Furthermore, a maternal effect for LG3-UNH168 (P < 9 9 10 À7 ) was associated with low female proportions in progeny (<7%), indicating a non-Mendelian effect on SD. Eighty-four males (77%) and 30 females (30%) were selected as parents, based on their genetic profiles for the SD loci that were associated with male production. Of these, 51 of 53 crosses produced all-male progeny, while two crosses had low female proportions in their progeny (<4%). This suggests that selection could be improved using the causative sequence variation underlying SD on LG3, since the large non-recombining block of the SD region in purebred Oa readily breaks down in hybrids. Nevertheless, marker-assisted selection for sex determining loci of admixed parental stocks may be used for all-male production.

Genetic parameters and selection responses were obtained for harvest body weight of blue tilapia (Oreochromis aureus) from data collected over three generations in a selected population. A total of 18 194 records representing 186 sires and 201 dams were used in the analysis. Within generation heritability estimates for harvest body weight ranged from 0.18 to 0.58. When data from more than one generation were included in the analysis, heritability estimates became more stable (0.33-0.40) and it was 0.33 when all data were included in the analysis. The common full-sib effect accounted for 10% of the phenotypic variance in the full data set. Heritability for survival from stocking to harvest was estimated at 0.01 and 0.09 in actual units (fitting an animal model) and in the logit (sire model) scale respectively. The genetic correlation between harvest body weight and survival was 0.22 and not significantly different from zero. The total selection response for harvest body weight over the three generations of selection measured as the difference between least-squares means of selected and control lines was 17.7%. The corresponding figure when response was measured as the difference between mean breeding values of selected and control lines was 19.6%. The average inbreeding coefficient was 0.003 after three generations of selection. These results indicate that there are good prospects for the genetic improvement of harvest body weight in blue tilapia.

Aquaculture facilities such as fishponds are one of the most anthropogenically impacted freshwater ecosystems. The high fish biomass reared in aquaculture is associated with an intensive input into the water of fish-feed and fish excrements. This nutrients load may affect the microbial community in the water, which in turn can impact the fish health. To determine to what extent aquaculture practices and natural seasonal cycles affect the microbial populations, we characterized the microbiome of an inter-connected aquaculture system at monthly resolution, over 3 years. The system comprised two fishponds, where fish are grown, and an operational water reservoir in which fish are not actively stocked. Clear natural seasonal cycles of temperature and inorganic nutrients concentration, as well as recurring cyanobacterial blooms during summer, were observed in both the fishponds and the reservoir. The structure of the aquatic bacterial communities in the system, characterized using 16S rRNA sequencing, was explained primarily by the natural seasonality, whereas aquaculture-related parameters had only a minor explanatory power. However, the cyanobacterial blooms were characterized by different cyanobacterial clades dominating at each fishpond, possibly in response to distinct nitrogen and phosphate ratios. In turn, nutrient ratios may have been affected by the magnitude of fish feed input. Taken together, our results show that, even in strongly anthropogenically impacted aquatic ecosystems, the structure of bacterial communities is mainly driven by the natural seasonality, with more subtle effects of aquaculture-related factors.