The effects of density and artificial substrate on intensive shrimp Litopenaeus vannamei nursery production

Recirculating aquaculture systems (RAS) can be installed indoors, allowing year-round production of tropical animals in nearly any climate. A nursery phase is commonly used in Litopenaeus vannamei production since it allows for enhanced biosecurity and better quantification of animals while reducing space requirements. However, it is unclear whether animal density and inclusion of artificial substrate may improve shrimp performance during the nursery phase. In this experiment, we compared shrimp production parameters in two stocking densities with or without the use of an artificial substrate by creating four treatments: low-density LD; 1500 PL/m⁻³, low-density with substrate LDS, high-density HD; 3000 PL/m⁻³), and high-density with substrate (HDS). The LDS and HDS treatments included 0.46-m² of high-density polyethylene 2.5-cm mesh as a substrate, which increased the tank surface area by 21 %. Each treatment was randomly assigned to four 160-l culture tanks, each with a biofilter. The shrimp had an initial weight of 4 mg and were grown for 50 days. The low-density treatments had significantly higher dissolved oxygen (DO) and pH than the high-density treatments (P ≤ 0.001). Specifically, LDS had the highest DO and pH followed by the LD, HD, and HDS treatments, respectively. High-density treatments had significantly higher NO₂-N levels than low-density treatments during week 2 of the experiment when an unusually high concentration of nitrite was observed. FCR was significantly lower in both low-density treatments than in high-density treatments. At harvest, the total biomass (kg m⁻³) was significantly higher in high-density treatments than in low-density treatments (P ≤ 0.001), and the HDS treatment had a significantly greater biomass output than HD. Producers should consider artificial substrate and higher densities during nursery production to maximize shrimp production; however, the effects on water quality should also be taken into account.     

Impact of Feeding Status on the Efficacy of Depuration for Decontaminating Vibrio parahaemolyticus in Pacific Oysters (Crassostrea gigas)

Vibrio parahaemolyticus causes acute human gastroenteritis and is often linked to consumption of raw oysters. Previous investigations indicated that refrigerated seawater depuration at 12.5°C could significantly reduce V. parahaemolyticus contamination in Pacific oysters; however, further optimization is necessary to achieve the regulatory target of >3.52 log most probable number (MPN)/g reduction. The current study investigated influences of algal feeding on efficacy of depuration to reduce V. parahaemolyticus in raw oysters. A V. parahaemolyticus cocktail (10290, 10292, 10293, BE 98–2029, 027-1c1) was mixed in artificial seawater (70 L) to inoculate oysters (n = 35) at 4–5 log MPN/g. Inoculated oysters were subjected to depuration with feed (algae = 0.036 ml/gram of oyster) and without feed at 12.5°C. Oysters (n = 5) were analyzed for V. parahaemolyticus using a three-tube MPN method after 0, 1, 3, 5, and 6 days of depuration. Depuration (6 days) achieved average V. parahaemolyticus reductions of 2.75 log MPN/g and 3.03 log MPN/g in the fed and unfed systems, respectively; however, feeding status did not significantly impact the efficacy of depuration to reduce V. parahaemolyticus in Pacific oysters. Further optimization of depuration is necessary to achieve the regulatory target for V. parahaemolyticus decontamination in raw oysters.     

The effects of protein kinase A catalytic subunit on sperm motility regulation in Pacific abalone Haliotis discus hannai

Protein kinase A plays a central role in the regulation of sperm motility from echinoderms to mammals, but the information about its regulatory role in molluscs is very limited. In this study, a protein kinase A catalytic subunit (designated as HdPKA‐C) was identified from Pacific abalone Haliotis discus hannai. The open reading frame of HdPKA‐C was of 1,077 bp, encoding a peptide of 358 amino acids with a typical protein kinase domain. HdPKA‐C shared 82%–87% sequence similarities with other PKA‐Cs, and it was clustered first with gastropod PKA‐Cs in the phylogenetic tree. The mRNA of HdPKA‐C was constitutively expressed in examined tissues, with the highest level detected in hepatopancreas. The phosphorylated form of HdPKA‐C (p‐HdPKA‐C) was localized at the acrosome, connecting piece and flagellum of spermatozoa with variable intensity. Its phosphorylated substrates were also detected in these regions with much lower intensity at the connecting piece. The inhibition of HdPKA‐C activity with H‐89 led to a significant reduction in the percentage of motile sperm and sperm velocities. p‐HdPKA‐C was detected by Western blot in strip‐spawned sperm, naturally spawned sperm and H‐89‐treated sperm with almost the same intensity. The intensity of p‐HdPKA‐C substrates in naturally spawned sperm was higher than that in strip‐spawned sperm, and it was roughly the same as that in H‐89‐treated sperm except for two bands at 50 and 60 kDa. These results collectively indicated that HdPKA‐C played an important role in the regulation of abalone sperm motility by altering its substrates phosphorylation.     

Long‐term changes in recruitment of age‐0 Pacific bluefin tuna (Thunnus orientalis) and environmental conditions around Japan

Recruitment of age‐0 Pacific bluefin tuna (Thunnus orientalis) from 1952 to 2014 was examined by a sequential regime shift detection method. The regime shifts in recruitment were detected in 1957, 1972, 1980, 1994 and 2009. The durations of regime shift ranged from 8–15 years and averaged 13.0 years. In both the total (1952–2014) and data rich (1980–2014) periods, negative relationships were found between recruitment and the Pacific Decadal Oscillation in autumn, and positive relationships were found between recruitment and sea surface temperature (SST) anomalies in the northern part of the East China Sea, in the southwestern part of the Sea of Japan, and in the waters off Shikoku and Tokai in summer and autumn. The 1994 and 2009 regime shifts in recruitment occurred in the same years as shifts in SST anomalies in the northern part of the East China Sea in summer. These results suggest that the ocean conditions in the northern part of the East China Sea are closely related to recruitment of Pacific bluefin tuna, and that the warmer conditions result in higher recruitment of the species.     

Time‐varying relationships between ocean conditions and sockeye salmon productivity

Environmental change is occurring at unprecedented rates in many marine ecosystems. Yet, environmental effects on fish populations are commonly assumed to be constant across time. In this study, I tested whether relationships between ocean conditions and productivity of North American sockeye salmon (Oncorhynchus nerka) stocks have changed over the past six decades. Specifically, I evaluated the evidence for non‐stationary relationships between three widely used ocean indices and productivity of 45 sockeye salmon stocks using hierarchical Bayesian models. The ocean indices investigated were the Pacific Decadal Oscillation (PDO), North Pacific Gyre Oscillation (NPGO), and sea surface temperature (SST). I found partial support for time‐varying salmon–ocean relationships. Non‐stationary relationships were strongest for the NPGO and weaker for the SST and PDO indices. Productivity–NPGO correlations tended to shift gradually over time with opposite trends for stocks in British Columbia (B.C.) and western Alaska; for B.C. stocks, the NPGO correlations shifted from significantly negative prior to 1980 to significantly positive after 1990, whereas for western Alaska stocks, the correlations shifted from positive to negative. Productivity–SST correlations showed declining trends for B.C. and Gulf of Alaska stocks, that is, correlations became more negative (B.C.) or less positive (Gulf of Alaska) over time. For the PDO, correlations weakened during the 1980s for western Alaska and B.C. stocks. Overall, these results provide evidence for time‐varying relationships between salmon productivity and environmental conditions over six decades, highlighting the need to recognize that historical responses of salmon populations to environmental change may not be indicative of future responses.     

What the past tells us about the future of Pacific salmon research

The Larkin lectures are held every two years at the University of British Columbia in recognition of Dr. Peter Larkin's contributions to fisheries science. The lecture I presented in November 2015 coincided with an announcement that the Institute of Fisheries that Peter Larkin founded in the 1960s would be restructured as the “Institute for Oceans and Fisheries” with an emphasis on fisheries and oceans issues important to British Columbia as well as the rest of the world. I decided to look back at research issues that Peter Larkin thought would be important for Pacific salmon (Oncorhynchus spp.) in the future and see what has happened as a way of identifying the complexity that the Institute for Oceans and Fisheries in particular and the science community in general will face. I chose five themes from Peter Larkin's talks: 1 understanding marine survival, 2 ocean carrying capacity, 3 aquaculture, 4 climate, Pacific salmon and climate change and 5 informing the public, and then added my opinion about research priorities for the future. Peter Larkin recognized the future relevance of these examples, but he probably could not have imagined how these and related issues will challenge his renamed institute and the rest of the research community over the next 50 years.     

Linking Northeast Pacific recruitment synchrony to environmental variability

We investigated the hypothesis that synchronous recruitment is due to a shared susceptibility to environmental processes using stock–recruitment residuals for 52 marine fish stocks within three Northeast Pacific large marine ecosystems: the Eastern Bering Sea and Aleutian Islands, Gulf of Alaska, and California Current. There was moderate coherence in exceptionally strong and weak year‐classes and correlations across stocks. Based on evidence of synchrony from these analyses, we used Bayesian hierarchical models to relate recruitment to environmental covariates for groups of stocks that may be similarly influenced by environmental processes based on their life histories. There were consistent relationships among stocks to the covariates, especially within the Gulf of Alaska and California Current. The best Gulf of Alaska model included Northeast Pacific sea surface height as a predictor of recruitment, and was particularly strong for stocks dependent on cross‐shelf transport during the larval phase for recruitment. In the California Current the best‐fit model included San Francisco coastal sea level height as a predictor, with higher recruitment for many stocks corresponding to anomalously high sea level the year before spawning and low sea level the year of spawning. The best Eastern Bering Sea and Aleutian Islands model included several environmental variables as covariates and there was some consistent response across stocks to these variables. Future research may be able to utilize these across‐stock environmental influences, in conjunction with an understanding of ecological processes important across early life history stages, to improve identification of environmental drivers of recruitment.     

A nonlinear,low data requirement model for producing spatially explicit fishery forecasts

Spatial variability can confound accurate estimates of catch per unit effort (CPUE), especially in highly migratory species. The incorporation of spatial structure into fishery stock assessment models should ultimately improve forecasts of stock biomass. Here, we describe a nonlinear time series model for producing spatially explicit forecasts of CPUE that does not require ancillary environmental or demographic data, or specification of a model functional form. We demonstrate this method using spatially resolved (1° × 1° cells) CPUE time series of North Pacific albacore in the California Current System. The spatial model is highly significant (P < 0.00001) and outperforms two spatial null models. We then create a spatial forecast map for years beyond the range of data. Such approaches can guide spatial management of resources and provide a complement to more data‐intensive, highly parameterized population dynamics and ecosystem models currently in use.     

Diazotroph community structure and abundance in wheat–fallow and wheat–pea crop rotations

Biological input of nitrogen (N) from the atmosphere by free-living diazotrophs can help alleviate fertilizer use in agricultural systems. In this study, we investigated the effect of N fertilizer and winter pea (Pisum sativum L.) crop on the community structure and abundance of free-living diazotrophs in a two year study of dryland winter wheat (Triticum aestivum L.) no-till production system in Eastern Oregon, USA. Based on quantification of the nifH gene, diazotroph abundance was strongly influenced by plant species and the crop year in which the soil samples were collected. A greater amount of nifH copies was recovered in 2012 compared to 2011 either as copies per gram soil or normalized to the abundance of bacterial 16S rRNA genes. The quantity of genes was greater under pea than wheat in 2012 although no difference was observed in the preceding year. The nifH gene abundance was positively correlated to ammonium concentration in 2011 and bacterial abundance in 2012. Nitrogen application did not influence diazotroph abundance in the top 0–5 cm; however the abundance was reduced by application at the lower 5–10 cm depth under wheat crop. The diazotroph community structure appeared to be influenced more by N fertilization rather than plant species with the exception of wheat in 2012. Changes in the community structure over the two years were greater for fertilized than unfertilized soil. Collectively, these data suggest that year-to-year variability had a greater influence on diazotroph communities rather than specific parameters of plant species, fertilization, total N, total organic C, or soil pH. Multi-year studies are necessary to define the specific drivers of diazotroph abundance, community structure and function.     

Effect of disinfection with peracetic acid on the microbial community of a seawater aquaculture recirculation system for Pacific white shrimp (Litopenaeus vannamei)

When tropical shrimps are kept in recirculating aquaculture systems (RAS), one of the limiting factors is the maintenance of a sufficient water quality, and therefore, often disinfectants like peracetic acid (PAA) are added to the water either as prophylactic or treatment measure. In this study, PAA in concentrations of 0.1 mg/L, 1 mg/L and 10 mg/L was applied continuously for 56 days to small-scale seawater RAS stocked with Litopenaeus vannamei. Treatment with 0.1 mg/L did not result in a reduction in the total bacterial amount and therefore was not effective. A concentration of 10 mg/L led to significant changes in the chemical water parameters already after 2 days and was therefore not recommendable. A concentration of 1 mg/L led to increased levels of ammonia and nitrite within 2 days and to a significant increase in the bacterial amount in the water, most probably due to an enhanced growth of heterotrophic bacteria. The microflora showed significant fluctuations, and there were indications that the welfare of the shrimps was affected. Using 1 mg PAA/L for prophylactic use is therefore also not recommendable but might be an alternative option for short-term treatment in cases of disease outbreaks.