Prey‐type‐dependent foraging of young‐of‐the‐year fish in turbid and humic environments

Abstract – Fish, which are generally visual foragers, experiences reduced reaction distance in visually degraded environments, which has consequences for encounter rates with prey. Small prey is detected at shorter distances than larger prey, and piscivores are therefore predicted to be more strongly affected by visual degradation. In experiments, roach (Rutilus rutilus) were fed two plankton prey types and pike (Esox lucius) were fed Daphnia and larval roach, in clear water, algal turbid water and water coloured brown by dissolved organic matter (DOM). Planktivorous foraging in roach was not affected by visual degradation, while pike foraging on both Daphnia and larval roach was. Pike showed increased reaction distance to Daphnia in visually degraded water, while it was severely reduced with roach as prey even if the visual range was not reduced below pike reaction distances in clear water. Pike foraging on Daphnia was not affected, but when foraging on roach, the reduced search efficiency was counteracted by increased attack rates. However, there was no increase in movement and no difference between turbid and DOM treatments. Effects on piscivores will likely become more pronounced at later life stages as prey size and the reliance on long‐distance detection increases at the same time as changing climatic conditions may further deteriorate the visual conditions in future.     

Assessing the effect of size‐grading for rearing young‐of‐the‐year white‐clawed crayfish Austropotamobius pallipes

Crayfish growth rates can vary considerably among individuals from the same brood, and social dominance hierarchies in crustacean species occur frequently. These hierarchies can reduce growth and survival when rearing communal groups. Size‐grading and single‐sex culturing are the methods used to combat this. A 160‐day experiment took place on 288 young‐of‐the‐year captive‐born Austropotamobius pallipes, within a closed‐circuit, indoor aquaculture facility. Crayfish were reared in three treatments (a) equal numbers of large males + small females (LMSF); (b) equal numbers of small males + large females (SMLF); (c) individuals of the same size, equal sex ratio; plus two control groups of single‐sex, same sized individuals. Female survival in the LMSF was significantly reduced (52.8%, SD = 20.7%), whereas overall survival in all other groups was high (83.1%, SD = 15.1%). Male growth (6.3 mm, SD = 0.6 mm) was greater than female growth (4.9 mm, SD = 0.9 mm) across all groups. Cheliped autotomy was significantly greater (8.8%) in males (26.7%, SD = 8.9%) than females (17.9%, SD = 2.7%). This study suggests that young‐of‐the‐year juvenile male A. pallipes grow faster and are more aggressive than females. Large males will suppress and reduce survival in smaller females whereas small males, when housed with larger females, will still grow faster than the females. We suggest that it is sex and not size that is the main factor that causes dominance hierarchies and growth suppression within juvenile A. pallipes. Maintaining juvenile A. pallipes in single‐sex groups is optimal to ensure high survival and growth rates.     

Incidental capture and mortality of sea turtles in the industrial double‐rig‐bottom trawl fishery in south‐eastern Brazil

1. Incidental capture by fisheries is one of the principal threats to sea turtles. This study analysed spatial and temporal patterns of sea turtle bycatch, and estimated the direct initial mortality rate of these animals, in the industrial double‐rig‐bottom trawl fishery in south‐eastern Brazil. This is also the first attempt to relate bycatch/at‐sea mortality in bottom trawling to stranded turtles found along the adjacent coast.
2. The fishery was monitored from October 2015 to April 2018 through data collected voluntarily by the captains of eight industrial double‐rig trawlers. Two hundred and one sea turtles were captured during 9362 tows (43,657.52 trawling hours), resulting in a catch per unit effort (CPUE) of 0.0025 ± 0.0032 turtles h^?1 with a standard net of 30.5 m headrope, with no significant difference between the estimated CPUEs for licensed shrimp and demersal fish trawlers.
3. Caretta caretta (52.24%) and Lepidochelys olivacea (38.81%) were the most frequently captured species. According to Generalized Linear Models, C. caretta bycatch was significantly higher during winter, at lower latitudes (?24° to ?23°) and higher longitudes (?42° to ?40°), while the L. olivacea bycatch was significantly higher at higher latitudes (?23° to ?21°). The direct initial mortality rate of sea turtles in the shrimp trawlers was 7.65 ± 3.85%. However, none of the dead individuals subsequently released with plastic tags (n = 10) were found stranded on the coast. Mortality was not significantly related to the depth or duration of the trawling.
4. The results of this study suggest the need for improvements to the current management of the bottom trawl fishery in Brazil, moving from a species‐based to a spatial and seasonal‐based approach. There is also a need to develop turtle excluder devices adapted to local fishing conditions.

     

Spatio‐temporal analyses of marine predator diets from data‐rich and data‐limited systems

Accounting for variation in prey mortality and predator metabolic potential arising from spatial variation in consumption is an important task in ecology and resource management. However, there is no statistical method for processing stomach content data that accounts for fine‐scale spatio‐temporal structure while expanding individual stomach samples to population‐level estimates of predation. Therefore, we developed an approach that fits a spatio‐temporal model to both prey‐biomass‐per‐predator‐biomass data (i.e. the ratio of prey biomass in stomachs to predator weight) and predator biomass survey data, to predict “predator‐expanded‐stomach‐contents” (PESCs). PESC estimates can be used to visualize either the annual landscape of PESCs (spatio‐temporal variation), or can be aggregated across space to calculate annual variation in diet proportions (variation among prey items and among years). We demonstrated our approach in two contrasting scenarios: a data‐rich situation involving eastern Bering Sea (EBS) large‐size walleye pollock (Gadus chalcogrammus, Gadidae) for 1992–2015; and a data‐limited situation involving West Florida Shelf red grouper (Epinephelus morio, Epinephelidae) for 2011–2015. Large walleye pollock PESC was predicted to be higher in very warm years on the Middle Shelf of the EBS, where food is abundant. Red grouper PESC was variable in north‐western Florida waters, presumably due to spatio‐temporal variation in harmful algal bloom severity. Our approach can be employed to parameterize or validate diverse ecosystem models, and can serve to address many fundamental ecological questions, such as providing an improved understanding of how climate‐driven changes in spatial overlap between predator and prey distributions might influence predation pressure.     

Fixed‐station monitoring of a harbour wall community: the utility of low‐cost photomosaics and scuba on hard‐substrata

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Latitudinal variation in growth and otolith‐inferred field metabolic rates of Canadian young‐of‐the‐year Arctic charr

Countergradient variation (CGV) is defined as genetic variation that counteracts the negative influences of the physical environment, minimising phenotypic variability along an environmental gradient. CGV is thought to have relevance in predicting the response of organisms to climate variability and change. To test the hypothesis that growth rate increased with latitude, consistent with CGV, young‐of‐the‐year (YOY) Arctic charr, Salvelinus alpinus, were examined along a ~27° latitudinal gradient in central and eastern Canada. Growth rates were estimated from fork lengths standardised by the thermal opportunity for growth based on experienced water temperatures derived using otolith oxygen stable isotopes. Results demonstrated patterns consistent with CGV, where northern populations demonstrated faster growth rates. A secondary aim was to test for similar geographical patterns in otolith‐inferred metabolic rates, which reflect the energetic costs of standard metabolic rate (SMR) and other processes such as feeding, locomotion, thermoregulation, reproduction and growth. Results demonstrated a significant, positive relationship between otolith‐inferred metabolic rate and latitude, which may reflect an increase in one, or a combination, of the above‐noted physiological processes. The similar latitudinal pattern in growth and otolith‐inferred metabolic rates suggests greater intake of food per unit of time by northern fish. The phenotypic variation in physiological traits observed here demonstrates the significant adaptability of Arctic charr to different thermal regimes with different growing season lengths. Determining the relative contributions of phenotypic plasticity and genetic variation to the observed latitudinal variation will be critical to predicting the responses of Arctic charr to climate change more accurately.     

Environmental factors and megafauna spatio‐temporal co‐occurrence with purse‐seine fisheries

Tropical tuna purse‐seine fisheries spatially co‐occur with various megafauna species, such as whale sharks, dolphins and baleen whales in all oceans of the world. Here, we analyzed a 10‐year (2002–2011) dataset from logbooks of European tropical tuna purse‐seine vessels operating in the tropical Eastern Atlantic and Western Indian Oceans, with the aim of identifying the principle environmental variables under which such co‐occurrence appear. We applied a Delta‐model approach using Generalized Additive Models (GAM) and Boosted Regression Trees (BRT) models, accounting for spatial autocorrelation using a contiguity matrix based on a residuals autocovariate (RAC) approach. The variables that contributed most in the models were chlorophyll‐a concentration in the Atlantic Ocean, as well as depth and monsoon in the Indian Ocean. High co‐occurrence between whale sharks, baleen whales and tuna purse‐seine fisheries were mostly observed in productive areas during particular seasons. In light of the lack of a full coverage scientific observer on board program, the large, long‐term dataset obtained from logbooks of tuna purse‐seine vessels is highly important for identifying seasonal and spatial co‐occurrence between the distribution of fisheries and megafauna, and the underlying environmental variables. This study can help to design conservation management measures for megafauna species within the framework of spatial fishery management strategies.     

Density‐ and species‐dependent errors in single‐pass timed electrofishing assessment of riverine salmonids

Electrofishing techniques are widely used for the estimation of the size of stream‐dwelling fish populations for both fishery management and scientific study. In contrast to multiple pass, population depletion methods, single‐pass catch‐per‐unit‐effort (CPUE) methods are less time‐consuming and labour‐intensive. A possible issue with the commonly used fixed total time CPUE protocol is that it does not differentiate between the time spent actively fishing and the time incurred while not actively fishing (e.g. removing fish from nets and navigating the site). This issue is likely related to fish density. This study compared two methods of CPUE electrofishing and tested the hypothesis that time spent handling fish and navigating a site can be a source of error in the commonly used fixed total time electrofishing method. Seventy‐one sites were sampled across three subcatchments in the Foyle catchment in Northern Ireland. We found a difference in the catch per unit time between the two methods and that this difference increased with fish density. The fixed‐time CPUE method also failed to detect a species presence in low‐density sites.     

Time‐series analysis of native and non‐native crayfish dynamics in the Thames River Basin (south‐eastern England)

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Comparison of L‐lysine·HCl and L‐lysine sulphate in the feed of Penaeus monodon and re‐evaluation of dietary lysine requirement for P. monodon

Two trials were conducted to compare L‐lysine HCl and L‐lysine sulphate regarding its availability to Penaeus monodon, and further evaluate the optimum dietary lysine requirement. In experiment 1, five experimental diets were formulated (D1, D2, D3, D4 and D5), a basal diet (D1), aimed at a low‐lysine concentration (2.22% dry matter), with lysine concentration of the other four diets increasing in two 0.25% L‐lysine intervals from either L‐lysine HCl (D2 and D3) or L‐lysine sulphate (D4 and D5). Each diet was fed at a restricted rate to three groups of 40 shrimp for 74 days. The highest values of growth performance (weight gain, WG; specific growth rate, SGR) and survival were observed with shrimp fed the L‐lysine HCl diet. Feed efficiency (FE) of shrimp fed D2 was significantly higher than that of shrimp fed D1 and D5 (P < 0.05), but without significant difference with shrimp fed D3 and D4 (P > 0.05). In experiment 2, six diets (d1, d2, d3, d4, d5 and d6) were formulated with six graded levels of lysine (2.21%, 2.41%, 2.59%, 2.87%, 3.11% and 3.29% of diet). Each diet was randomly assigned to triplicate groups of 40 shrimp for 74 days. WG, SGR and survival increased increasing levels of lysine up to 2.41% of diet and reached an apparent plateau. Broken‐line model analysis on WG and SGR indicated that the optimum dietary lysine level for optimal growth of shrimp was 2.37% of diet, corresponding to 5.78% of dietary protein. In conclusion, results of this trial suggest that L‐lysine HCl is superior to L‐lysine sulphate when fed to Penaeus monodon and optimal growth can be obtained at lysine levels corresponding to 2.37% of diet, or 5.78% of dietary protein in this specie.     

Harvesting,post‐harvest handling and live‐transport of freshwater prawns in the United States

Freshwater prawn Macrobrachium rosenbergii aquaculture continues to expand in the United States though is still a relatively small industry. Innovations continue to improve efforts in harvesting with novel harvest basin designs and concrete internal pond aprons. Purging and holding strategies are more defined. Some producers are now investing in water re‐use systems to extend holding times for many days, making prawns more readily available for market. The lucrative live‐market, which historically has had many challenges, seems poised for success when following new protocols which address handling and oxygen stress.     

Catch‐related fish injury and catch efficiency of stow‐net‐based fish recovery installations for fish‐monitoring at hydropower plants

Hydropower‐related damage to fish remains a great challenge, making objective monitoring of turbine‐related fish injury a necessity. The catch of fish at turbine outlets is currently realised by net fishing, but potential catch‐related injuries are largely unknown. Catch efficiency and fish‐friendliness in relation to fish handling, exposure time, floating debris and fish biomass of four fish recovery installations were assessed using seven species. Highly species‐specific lethal and sublethal effects were observed. Exposure time had the strongest effects on catch‐related damage, being up to 150‐fold increase after 12 hr compared to 1 hr. Up to 84% mortality occurred in the most sensitive species Thymallus thymallus L. Besides exposure time, higher current speed and biomass within the net resulted in greater fish damage. To minimise catch‐related effects, keeping emptying periods <1–2 hr and considering the effects of current speed, fish and debris biomass are crucial to increase data comparability among studies.     

Molecular docking and simulation studies of 3‐(1‐chloropiperidin‐4‐yl)‐6‐fluoro benzisoxazole 2 against VP26 and VP28 proteins of white spot syndrome virus

White spot syndrome virus (WSSV), an aquatic virus infecting shrimps and other crustaceans, is widely distributed in Asian subcontinents including India. The infection has led to a serious economic loss in shrimp farming. The WSSV genome is approximately 300 kb and codes for several proteins mediating the infection. The envelope proteins VP26 and VP28 play a major role in infection process and also in the interaction with the host cells. A comprehensive study on the viral proteins leading to the development of safe and potent antiviral therapeutic is of adverse need. The novel synthesized compound 3‐(1‐chloropiperidin‐4‐yl)‐6‐fluoro benzisoxazole 2 is proved to have potent antiviral activity against WSSV. The compound antiviral activity is validated in freshwater crabs (Paratelphusa hydrodomous). An in silico molecular docking and simulation analysis of the envelope proteins VP26 and VP28 with the ligand 3‐(1‐chloropiperidin‐4‐yl)‐6‐fluoro benzisoxazole 2 are carried out. The docking analysis reveals that the polar amino acids in the pore region of the envelope proteins were involved in the ligand binding. The influence of the ligand binding on the proteins is validated by the molecular dynamics and simulation study. These in silico approaches together demonstrate the ligand's efficiency in preventing the trimers from exhibiting their physiological function.     

A new large‐scale and cost‐effective restoration method for cold‐water coral gardens

1. Gorgonians dwelling on the Mediterranean continental shelf are among the most frequent fishing bycatch taxa. These species display several traits, such as long lifespans and slow growth, which make them very vulnerable to the impacts caused by fishing activities with far‐reaching and long‐lasting effects.
2. Hence, restoration and mitigation actions are crucial to enhance and speed up the natural recovery of damaged cold‐water coral gardens. Given the growing concern to develop effective and affordable restoration actions, the present study aims to propose and technically validate a new large‐scale and cost‐effective restoration method.
3. This technique, named ‘badminton method', consists of attaching bycatch Eunicella cavolini colonies to cobble supports and returning them to the continental shelf by gently throwing the gorgonian transplants directly from a boat.
4. Two consecutive field experiments were conducted in order to find the best cobble type support and gorgonian size to be used: first, to evaluate the landing efficiency of gorgonian transplants at different depths (from 5 to 30 m) and second, to evaluate their capability to maintain a correct position over time.
5. Natural cobbles with large gorgonians attached were the best option. Field results and modelling approaches suggest that the transplants would correctly land on the continental shelf seabed in a predicted area of around 60 m². Moreover, they would successfully maintain an upright position ensuring gorgonian survival over time.
6. The success of this method highlights the feasibility of large‐scale and low‐cost restoration actions with promising results for the conservation and recovery of cold‐water coral gardens.

     

Mountains‐to‐the‐sea conservation: An island perspective

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Interannual and spatial variation in the population genetic composition of young‐of‐the‐year Pacific ocean perch (Sebastes alutus) in the Gulf of Alaska

Little is known about the population structure of Alaskan rockfishes, including Pacific ocean perch (POP, Sebastes alutus), and how persistent and variable oceanographic features may influence their structures. Moreover, early life history information is sparse for many species. We used data from 14 microsatellite loci to characterize the genetic structure of young‐of‐the‐year Pacific ocean perch collected during 1998–2003 from the Gulf of Alaska and Bering Sea. Broad‐scale geographic variation in genetic structure of the young‐of‐the‐year (F_ST = 0.005, P < 10^?4) had similarities to that observed in a previous adult study. The overall correlation between genetic and geographic distance (isolation by distance) was nearly identical to that observed in the adults. Fine‐scale geographic divergence was also observed and may be the result of oceanographic circulation features within the Gulf of Alaska. Interannual variation (between cohorts) at locations sampled in more than one year is consistent with variable oceanography and fine‐scale population structure rather than the influence of a sweepstakes effect. The similarities of the young‐of‐the‐year with the adults and the pattern of genetic divergence confirm that dispersal of Pacific ocean perch is limited in all life stages.     

Bacterial communities and predicted nitrogen metabolism of heterotrophic‐ and probiotic‐based biofilms used for super‐intensive indoor shrimp culture

Biofilm‐based aquaculture systems constitute a promising alternative for intensive shrimp rearing. Microorganisms forming biofilms can recycle the nitrogen compounds the production units improving the water quality while using zero or limited water exchange. This study aimed to compare the taxonomic profiles and the predicted functions related to the transformation of nitrogenous compounds between a heterotrophic‐ (HtB) and a probiotic biofilm (PrB), and the effect of these on the water quality and the productive response of cultured shrimp. Libraries of the 16S‐rRNA gene (V3‐V4 region) were prepared and sequenced to be used as a taxonomic biomarker. Analysis of metagenomic datasets revelated that genera Halomonas, Planctomycetes and Rhodopirellula were the most abundant genera in HtB; meanwhile, Bacillus, Halobacillus and Flavobacterium dominated in PrB. Regarding nitrogen metabolism, the proportion of genes encoding enzymes catalyzing the six pathways shaping the nitrogen metabolism showed differences between biofilms, which could also explain the difference in water quality between treatments. Concerning the productive response of shrimp, no significant differences were detected except for survival, which was higher in PrB. Finally, the results suggest that biofilms harbour functions for nitrogen metabolism, including dissimilatory nitrate reduction, assimilatory nitrate reduction, denitrification, nitrification, nitrogen fixation and anammox; however, the balance of these functional capabilities seems to be relevant to maintain water quality.