Quantifying key parameters related to the life cycle of Caligus rogercresseyi.

The salmon louse Caligus rogercresseyi (Boxshall and Bravo 2000) is a common ectoparasite of farmed salmonids in Chile. Sea lice can negatively impact the growth of hosts, adversely affecting aquaculture productivity. Unlike Lepeophtheirus salmonis (Krøyer, 1838), whose life cycle parameters have been well studied due to its importance in the Northern Hemisphere, for C. rogercresseyi no single source exists that quantifies the parameters required to model this ectoparasite's life cycle. Given that different species of sea lice have substantially different biological characteristics, it is important to parameterize the life cycle of C. rogercresseyi using appropriate observational data, rather than simply trying to adapt parameters developed for L. salmonis. Using data from existing literature, we quantified the development and survival rates for each stage in the C. rogercresseyi life cycle. We illustrate how development rates are affected by water temperature and explore the important impacts of salinity on rates of survival. We present equations that can be used to model development periods and survival proportions given certain water temperature and salinity profiles. While key parameters to quantitatively model the life cycle of C. rogercresseyi are presented, further research is required to adequately model the complete population dynamics of this ectoparasite on Chilean salmon farms and consequently to support decision-making to achieve effective control and mitigation.

Variation in the post-smolt growth pattern of wild one sea-winter salmon (Salmo salar L.), and its linkage to surface warming in the eastern North Atlantic Ocean.

Variation in circulus spacing on the scales of wild Atlantic salmon is indicative of changes in body length growth rate. We analyzed scale circulus spacing during the post-smolt growth period for adult one sea-winter salmon (n = 1947) returning to Scotland over the period 1993-2011. The growth pattern of the scales was subjectively and visually categorized according to the occurrence and zonal sequence of three intercirculus spacing criteria ("Slow", "Fast" and "Check" zones). We applied hierarchical time-series cluster analysis to the empirical circulus spacing data, followed by post hoc analysis of significant changes in growth patterns within the 20 identified clusters. Temporal changes in growth pattern frequencies showed significant correlation with sea surface temperature anomalies during the early months of the post-smolt growth season and throughout the Norwegian Sea. Since the turn of the millennium, we observed (a) a marked decrease in the occurrence of continuous Fast growth; (b) increased frequencies of fish showing an extended period of initially Slow growth; and (c) the occurrence of obvious growth Checks or hiatuses. These changes in post-smolt growth pattern were manifest also in decreases in the mean body length attained by the ocean midwinter, as sea surface temperatures have risen.

Defining 'actionable' high- costhealth care use: results using the Canadian Institute for Health Information population grouping methodology.

BACKGROUND: A small proportion of the population consumes the majority of health care resources. High-cost health care users are a heterogeneous group. We aim to segment a provincial population into relevant homogenous sub-groups to provide actionable information on risk factors associated with high-cost health care use within sub-populations. METHODS: The Canadian Institute for Health Information (CIHI) Population Grouping methodology was used to define mutually exclusive and clinically relevant health profile sub-groups. High-cost users (> = 90th percentile of health care spending) were defined within each sub-group. Univariate analyses explored demographic, socio-economic status, health status and health care utilization variables associated with high-cost use. Multivariable logistic regression models were constructed for the costliest health profile groups. RESULTS: From 2015 to 2017, 1,175,147 individuals were identified for study. High-cost users consumed 41% of total health care resources. Average annual health care spending for individuals not high-cost were $642; high-cost users were $16,316. The costliest health profile groups were 'long-term care', 'palliative', 'major acute', 'major chronic', 'major cancer', 'major newborn', 'major mental health' and 'moderate chronic'. Both 'major acute' and 'major cancer' health profile groups were largely explained by measures of health care utilization and multi-morbidity. In the remaining costliest health profile groups modelled, 'major chronic', 'moderate chronic', 'major newborn' and 'other mental health', a measure of socio-economic status, low neighbourhood income, was statistically significantly associated with high-cost use. INTERPRETATION: Model results point to specific, actionable information within clinically meaningful subgroups to reduce high-cost health care use. Health equity, specifically low socio-economic status, was statistically significantly associated with high-cost use in the majority of health profile sub-groups. Population segmentation methods, and more specifically, the CIHI Population Grouping Methodology, provide specificity to high-cost health care use; informing interventions aimed at reducing health care costs and improving population health.

Modelling sea lice control by lumpfish on Atlantic salmon farms: interactions with mate limitation, temperature and treatment rules.

Atlantic salmon farming is one of the largest aquaculture sectors in the world. A major impact on farm economics, fish welfare and, potentially, nearby wild salmonid populations, is the sea louse ectoparasite Lepeophtheirus salmonis. Sea louse infestations are most often controlled through application of chemicals, but in most farming regions, sea lice have evolved resistance to the small set of available chemicals. Therefore, alternative treatment methodologies are becoming more widely used. One increasingly common alternative treatment involves the co-culture of farmed salmon with cleaner fish, which prey on sea lice. However, despite their wide use, little is understood about the situations in which cleaner fish are most effective. For example, previous work suggests that a low parasite density results in sea lice finding it difficult to acquire mates, reducing fecundity and population growth. Other work suggests that environmental conditions such as temperature and external sea louse pressure have substantial impact on this mate limitation threshold and may even remove the effect entirely. We used an Agent-Based Model (ABM) to simulate cleaner fish on a salmon farm to explore interactions between sea louse mating behaviour, cleaner fish feeding rate, temperature and external sea louse pressure. We found that sea louse mating has a substantial effect on sea louse infestations under a variety of environmental conditions. Our results suggest that cleaner fish can control sea louse infestations most effectively by maintaining the population below critical density thresholds.

Assisting differential clinical diagnosis of cattle diseases using smartphone-based technology in low resource settings: a pilot study.

BACKGROUND: The recent rise in mobile phone use and increased signal coverage has created opportunities for growth of the mobile Health sector in many low resource settings. This pilot study explores the use of a smartphone-based application, VetAfrica-Ethiopia, in assisting diagnosis of cattle diseases. We used a modified Delphi protocol to select important diseases and Bayesian algorithms to estimate the related disease probabilities based on various clinical signs being present in Ethiopian cattle. RESULTS: A total of 928 cases were diagnosed during the study period across three regions of Ethiopia, around 70% of which were covered by diseases included in VetAfrica-Ethiopia. Parasitic Gastroenteritis (26%), Blackleg (8.5%), Fasciolosis (8.4%), Pasteurellosis (7.4%), Colibacillosis (6.4%), Lumpy skin disease (5.5%) and CBPP (5.0%) were the most commonly occurring diseases. The highest (84%) and lowest (30%) levels of matching between diagnoses made by student practitioners and VetAfrica-Ethiopia were for Babesiosis and Pasteurellosis, respectively. Multiple-variable logistic regression analysis indicated that the putative disease indicated, the practitioner involved, and the level of confidence associated with the prediction made by VetAfrica-Ethiopia were major determinants of the likelihood that a diagnostic match would be obtained. CONCLUSIONS: This pilot study demonstrated that the use of such applications can be a valuable means of assisting less experienced animal health professionals in carrying out disease diagnosis which may lead to increased animal productivity through appropriate treatment.

Wild juvenile salmonids in Muchalat Inlet, British Columbia, Canada: factors associated with sea lice prevalence.

The Muchalat Inlet, British Columbia, is among the most westerly points at which aquaculture is practiced in Canada. In this paper, we summarise data from over 18000 wild fish sampled at 16 sites over an 8 yr period, between 2004 and 2011. The most prevalent wild species was chum salmon Oncorhynchus keta (82.4%), followed by Chinook O. tshawytscha (10%) and coho O. kisutch (4.3%). However, inter-annual and seasonal variation was evident, and smaller numbers of other Pacific salmon and stickleback species were sporadically observed. A high percentage of wild salmon (~95%) had no sea lice parasites present, with less than 1% of the fish hosting a mobile-stage sea louse. Of the data for which sea lice species were recorded, just over 96% of samples were identified as Lepeophtheirus salmonis. Logistic regression models assessed the association between the presence of lice and a range of independent variables. These models indicated a significant degree of spatial variation, much of which could be explained in terms of salinity levels. There were also important variations through time, both over the season within a year and across years. In addition, coho salmon were significantly more likely (odds ratio = 1.65; 95% CI = 1.20-2.3) to be infected than chum salmon. The protective effect of low salinity was most clearly seen at values lower than 15 psu, although this was dependent on fish species.

Differences in diversity and community composition of the shell microbiome of apparently healthy lobsters Homarus americanus across Atlantic Canada.

Host-microbe dynamics are of increasing interest in marine research due to their role in host health and productivity. Changes in the shell microbiome of American lobsters have been associated with epizootic shell disease, a syndrome that is spreading northwards across the eastern U.S. and Canadian Atlantic coast. This study analyzed differences in alpha and beta diversity, as well as differentially abundant taxa, in the shell-associated bacterial community of apparently healthy lobsters from four lobster fishing areas (LFAs) in Atlantic Canada. Over 180 lobsters from New Brunswick, Nova Scotia and Prince Edward Island (PEI) were sampled during seven sampling events over four sampling months. The bacterial community was identified using novel PacBio long-read sequencing, while alpha and beta diversity parameters were analyzed using linear regression models and weighted UniFrac distances. The bacterial richness, diversity and evenness differed by sampling location, sampling month, and molt stage, but not by lobster sex or size, nor sampling depth. Similarly, based on LFA, sampling month, year and lobster molt stage, the shell microbiome differed in microbial community composition with up to 34 out of 162 taxa differing significantly in abundance between sampling groups. This large-scale microbial survey suggests that the shell microbial diversity of apparently healthy lobsters is influenced by spatial and temporal factors such as geographic location, as well as the length of time the carapace is exposed to the surrounding seawater.

Impact of parasites on salmon recruitment in the Northeast Atlantic Ocean.

Parasites may have large effects on host population dynamics, marine fisheries and conservation, but a clear elucidation of their impact is limited by a lack of ecosystem-scale experimental data. We conducted a meta-analysis of replicated manipulative field experiments concerning the influence of parasitism by crustaceans on the marine survival of Atlantic salmon (Salmo salar L.). The data include 24 trials in which tagged smolts (totalling 283 347 fish; 1996-2008) were released as paired control and parasiticide-treated groups into 10 areas of Ireland and Norway. All experimental fish were infection-free when released into freshwater, and a proportion of each group was recovered as adult recruits returning to coastal waters 1 or more years later. Treatment had a significant positive effect on survival to recruitment, with an overall effect size (odds ratio) of 1.29 that corresponds to an estimated loss of 39 per cent (95% CI: 18-55%) of adult salmon recruitment. The parasitic crustaceans were probably acquired during early marine migration in areas that host large aquaculture populations of domesticated salmon, which elevate local abundances of ectoparasitic copepods-particularly Lepeophtheirus salmonis. These results provide experimental evidence from a large marine ecosystem that parasites can have large impacts on fish recruitment, fisheries and conservation.

Multivariate evaluation of the effectiveness of treatment efficacy of cypermethrin against sea lice (Lepeophtheirus salmonis) in Atlantic salmon (Salmo salar).

BACKGROUND: The sea louse Lepeophtheirus salmonis is the most important ectoparasite of farmed Atlantic salmon (Salmo salar) in Norwegian aquaculture. Control of sea lice is primarily dependent on the use of delousing chemotherapeutants, which are both expensive, and toxic to other wildlife. The method most commonly used for monitoring treatment effectiveness relies on measuring the percentage reduction in the mobile stages of Lepeophtheirus salmonis only. However, this does not account for changes in the other sea lice stages and may result in misleading or incomplete interpretation regarding the effectiveness of treatment. With the aim of improving the evaluation of delousing treatments, we explored multivariate analyses of bath treatments using the topical pyrethroid, cypermethrin, in salmon pens at five Norwegian production sites. RESULTS: Conventional univariate analysis indicated reductions of over 90% in mobile stages at all sites. In contrast, multivariate analyses indicated differing treatment effectiveness between sites (p-value < 0.01) based on changes in the proportion and abundance of the chalimus and PAAM (pre-adult and adult males) stages. Low water temperatures and shortened intervals between sampling after treatment may account for the differences in the composition of chalimus and PAAM stage groups following treatment. Using multivariate analysis, such factors could be separated from those which were attributable to inadequate treatment or chemotherapeutant failure. CONCLUSIONS: Multivariate analyses for evaluation of treatment effectiveness against multiple life cycle stages of L. salmonis yield additional information beyond that derivable from univariate methods. This can aid in the identification of causes of apparent treatment failure in salmon aquaculture.

Sea lice infestations on juvenile chum and pink salmon in the Broughton Archipelago, Canada, from 2003 to 2012.

Juvenile pink salmon Oncorhynchus gorbuscha and chum salmon O. keta were sampled by beach or purse seine to assess levels of sea lice infestation in the Knight Inlet and Broughton Archipelago regions of coastal British Columbia, Canada, during the months of March to July from 2003 to 2012. Beach seine data were analyzed for sea lice infestation that was described in terms of prevalence, abundance, intensity, and intensity per unit length. The median annual prevalence for chum was 30%, ranging from 14% (in 2008 and 2009) to 73% (in 2004), while for pink salmon, the median was 27% and ranged from 10% (in 2011) to 68% (in 2004). Annual abundance varied from 0.2 to 5 sea lice per fish with a median of 0.47 for chum and from 0.1 to 3 lice (median 0.42) for pink salmon. Annual infestation followed broadly similar trends for both chum and pink salmon. However, the abundance and intensity of Lepeophtheirus salmonis and Caligus clemensi, the 2 main sea lice species of interest, were significantly greater on chum than on pink salmon in around half of the years studied. Logistic regression with random effect was used to model prevalence of sea lice infestation for the combined beach and purse seine data. The model suggested inter-annual variation as well as a spatial clustering effect on the prevalence of sea lice infestation in both chum and pink salmon. Fish length had an effect on prevalence, although the nature of this effect differed according to host species.

Data-fed, needs-driven: Designing analytical workflows fit for disease surveillance.

Syndromic surveillance has been an important driver for the incorporation of "big data analytics" into animal disease surveillance systems over the past decade. As the range of data sources to which automated data digitalization can be applied continues to grow, we discuss how to move beyond questions around the means to handle volume, variety and velocity, so as to ensure that the information generated is fit for disease surveillance purposes. We make the case that the value of data-driven surveillance depends on a "needs-driven" design approach to data digitalization and information delivery and highlight some of the current challenges and research frontiers in syndromic surveillance.

Observed size distribution changes in American lobsters over a 12-year period in southwestern Nova Scotia, Canada.

Size distribution and size frequency information of American lobsters (Homarus americanus) are often used to help estimate the age distributions, and reproductive output for the species and to guide the determination of appropriate minimum legal sizes for the fishery. This study used truncated linear regression models to estimate the effects of sampling year, sampling month, lobster sex and water depth on the lobster size. A dataset of almost 130,000 trap-caught lobsters from the two most important lobster fishing areas of Atlantic Canada collected over a 12-year period (2004-2015) was analyzed. It was shown that truncated models can help to account for biases due to the trap sampling method from vessels and from wharf samplings. There were significant annual and seasonal changes in size distribution, and data collected outside the fishing season showed a significant increase in carapace length in 2014 and 2015, potentially reflecting a northward shift of the range of lobster populations due to more favourable settlement and recruitment habitats. Size also increased in late summer, likely due to moult. Our results demonstrated that landed lobsters, especially females, were smaller than the predicted size-at-maturity in the region (96.5 mm carapace length), which could have long-term repercussions for the stock's reproductive potential.

Long-read sequencing reveals the shell microbiome of apparently healthy American lobsters Homarus americanus from Atlantic Canada.

The shell microbial community of lobsters-a key factor in the development of epizootic shell disease (ESD)-is still insufficiently researched in Atlantic Canada and many knowledge gaps remain. This study aimed to establish a baseline description and analysis of the shell microbiome of apparently healthy lobsters from four locations in the region. More than 180 lobster shell swab samples were collected from New Brunswick, Nova Scotia and Prince Edward Island (PEI). PacBio long-read 16S rDNA sequencing and bioinformatic analyses in QIIME2 identified the shell-associated bacteria. The shell microbiome of healthy lobsters consisted mainly of the bacterial classes Gammaproteobacteria, Saprospiria, Verrucomicrobiae, Alphaproteobacteria, Flavobacteriia, Acidimicrobiia and Planctomycetia. The microbial composition differed regionally and seasonally, with some classes showing decreased or increased relative abundances in the PEI samples as well as in the winter and spring samples in Nova Scotia. The core shell microbiome included potentially pathogenic as well as beneficial bacterial taxa, of which some were present only in certain regions. Bacterial taxa that have previously been associated with ESD were present on healthy lobsters in Atlantic Canada, but their frequency differed by location, sampling time, and moult stage. This study indicated that geographical and seasonal factors influenced the shell microbiome of apparently healthy lobsters more than host factors such as sex, size, and moult stage. Our results provide valuable reference microbial data from lobsters in a disease-free state.

Effectiveness of emamectin benzoate for treatment of Lepeophtheirus salmonis on farmed Atlantic salmon Salmo salar in the Bay of Fundy, Canada.

Emamectin benzoate (an avermectin chemotherapeutant administered to fish as an in-feed treatment) has been used to treat infestations of sea lice Lepeophtheirus salmonis on farmed Atlantic salmon Salmo salar in the Bay of Fundy, New Brunswick, Canada, since 1999. This retrospective study examined the effectiveness of 114 emamectin benzoate treatment episodes from 2004 to 2008 across 54 farms. Study objectives were to establish whether changes in the effectiveness of emamectin benzoate were present for this period, examine factors associated with treatment outcome, and determine variables that influenced differences in L. salmonis abundance after treatment. The analysis was carried out in 2 parts: first, trends in treatment effectiveness and L. salmonis abundance were explored, and second, statistical modelling (linear and logistic regression) was used to examine the effects of multiple variables on post-treatment abundance and treatment outcome. Post-treatment sea lice abundance increased in the later years examined. Mean abundance differed between locations in the Bay of Fundy, and higher numbers were found at farms closer to the mainland and lower levels were found in the areas around Grand Manan Island. Treatment effectiveness varied by geographical region and decreased over time. There was an increased risk for unsuccessful treatments in 2008, and treatments applied during autumn months were more likely to be ineffective than those applied during summer months.

Fisheries dataset on moulting patterns and shell quality of American lobsters H. americanus in Atlantic Canada.

Monitoring the moulting phenology of American lobsters (Homarus americanus) is important for maintaining sustainable lobster stocks. Changes in lobster landings can affect reproduction and disease susceptibility. Data on lobster moult indicators and on life-history traits (sex, size) were collated from a twelve-year monitoring program (2004-2015) in six lobster fishing areas in Atlantic Canada. A total of 141,659 lobsters were sampled over 1,195 sampling events using a standardized protocol and commercial lobster fishing traps. The dataset contains pleopod stages, estimated hemolymph protein levels (°Brix values) and shell hardness as well as lobster sex and size. Evaluation of sex ratio dynamics is also possible but existing biases in sampling males and females needs to be noted. This dataset is valuable in terms of inferring spatio-temporal trends in the life history of lobsters, as well as in the analysis of their moult cycle, and hence more generally for fisheries science and marine ecology.

Corrigendum: Data-Driven Surveillance: Effective Collection, Integration, and Interpretation of Data to Support Decision Making.

[This corrects the article DOI: 10.3389/fvets.2021.633977.].

Data-Driven Surveillance: Effective Collection, Integration, and Interpretation of Data to Support Decision Making.

The biggest change brought about by the "era of big data" to health in general, and epidemiology in particular, relates arguably not to the volume of data encountered, but to its variety. An increasing number of new data sources, including many not originally collected for health purposes, are now being used for epidemiological inference and contextualization. Combining evidence from multiple data sources presents significant challenges, but discussions around this subject often confuse issues of data access and privacy, with the actual technical challenges of data integration and interoperability. We review some of the opportunities for connecting data, generating information, and supporting decision-making across the increasingly complex "variety" dimension of data in population health, to enable data-driven surveillance to go beyond simple signal detection and support an expanded set of surveillance goals.

Modeling Pathogen Dispersal in Marine Fish and Shellfish.

In marine ecosystems, oceanographic processes often govern host contacts with infectious agents. Consequently, many approaches developed to quantify pathogen dispersal in terrestrial ecosystems have limited use in the marine context. Recent applications in marine disease modeling demonstrate that physical oceanographic models coupled with biological models of infectious agents can characterize dispersal networks of pathogens in marine ecosystems. Biophysical modeling has been used over the past two decades to model larval dispersion but has only recently been utilized in marine epidemiology. In this review, we describe how biophysical models function and how they can be used to measure connectivity of infectious agents between sites, test hypotheses regarding pathogen dispersal, and quantify patterns of pathogen spread, focusing on fish and shellfish pathogens.

The Application of a Mathematical Model to Evaluate the Effectiveness of Control Strategies Against Ciona intestinalis in Mussel Production.

The Prince Edward Island (PEI) mussel industry has faced challenges associated with invasive tunicate species over the past two decades. Field experiments to find suitable mitigation strategies require considerable time and are resource intensive. This study demonstrates the application of a mathematical model to assess several control strategies against Ciona intestinalis populations under different temperature conditions in a mussel production area in PEI. A temperature dependent compartmental model was used to model the total abundance of C. intestinalis. Each mitigation strategy was defined in terms of a combination of timing and frequency of treatments. Various strategies were explored to obtain the combination that maximized the difference in predicted abundances between the control (untreated) and the different mitigation strategies. Treatment frequency was allowed to vary between one and four times over a given production year. The model was assessed under baseline conditions, which mimicked water temperatures from Georgetown Harbor, PEI, in 2008; as well as under scenarios that reflected prolonged summer or warm spring temperatures. Furthermore, the sensitivity of the model to variations in presumed treatment efficacy was evaluated. The use of all four available treatments, starting around the first week of July and correctly timed thereafter, provided the most effective strategy, assuming the baseline temperature scenario. However, the effectiveness of this mitigation strategy depended on temperature conditions. The mathematical model developed in this study allows decision makers to explore different strategies to control the abundance of C. intestinalis in mussel production areas under different environmental conditions. In addition, the modeling framework developed could be adapted to simulate comparable ectoparasitic infestation in aquatic environments.

Assessment of farmers' compliance in implementing recommended cow comfort changes and their effects on lying time, stall and cow cleanliness within smallholder dairy farms in Kenya.

Our study aimed to evaluate farmers' compliance in implementing recommendations of farm-specific cow comfort changes, and the effects of these changes on lying time, stall cleanliness and cow cleanliness using a randomized controlled trial carried out on 100 smallholder dairy farms in Kenya, with 62 and 11 farms remaining in the intervention and control groups, respectively. On the first farm visit, data loggers were attached on lactating cows to determine lying time and questionnaires utilized to collect baseline data. Three days later, stall design and management recommendations were given to the intervention group of farmers orally and in written form. After an average of 39 ±â€¯7 days, data loggers were re-attached, compliance was assessed, and a post-intervention questionnaire was administered to the intervention group on the third visit. Three days subsequent to the first and third visits, data loggers were removed from all cows. Data were analysed in Stata 14.2® using proportion tests and Kruskal-Wallis rank tests to compare cleanliness scores and lying time, respectively. Interaction effects between treatment groups and visits were assessed using multivariable mixed linear and logistic regression models. While 46 of the 62 intervention farmers (74%) made at least one recommended change to cow comfort, 63% of the 324 overall recommendations were implemented. The odds of a recommendation being implemented were significantly higher when:1) major recommendations were given relative to minor recommendations (OR = 6.28); 2) recommendations were related to floor characteristics (floor softness and flatness) in comparison to recommendations related to stall design (OR = 3.14). The odds of compliance were lower on: 1) farms where the farm-hands received the recommendations compared to farms that had the female principal farmer receive the recommendations (OR = 0.01); 2) farms that had recommended changes related to roof, alley and sharps fixes relative to stall design fixes (OR = 0.13). Post-intervention, stall, udder and upper hind-leg cleanliness scores improved significantly (p < 0.0001, p = 0.021 and p = 0.017, respectively) in the intervention farms but not in the control farms. There was no significant difference in lying times between intervention and control farms, with 0.6 and 0.2 h/day increases being recorded in the intervention and control groups, from the 10.9 and 10.4 h/day at baseline, respectively. Giving farm-specific cow comfort recommendations to smallholder dairy farmers in Kenya, and providing them with a participatory role in the formulation and implementation of improvement recommendations ensured good acceptance and a high degree of implementation, and led to a subsequent improvement in cow comfort and cleanliness.