Optimum Sample Size to Estimate Mean Parasite Abundance in Fish Parasite Surveys

Impact of transport conditions and underlying disease on post-stocking survival of juvenile Lates calcarifer

Diseases caused by pathogens commonly occurring in the aquatic environment or those that are non-host specific are prevalent and threaten the rapid growth of tropical aquaculture. This study investigates causes of mortality in 12 batches of newly stocked juvenile Lates calcarifer from three different hatcheries. Cytology based on Diff-Quik™-stained tissue and blood smears provides rapid diagnosis of possible causes of mortality, while histopathology and haematology provide a better understanding of how prolonged transport and fish with existing chronic disease are more likely to experience elevated mortality post-stocking. Our findings showed that accumulation of ammonia during prolonged transport causes extensive damage to epithelial barriers in gastrointestinal tracts and depressed immunity due to marked hypoglycaemia, predisposing fish to acute Streptococcosis. Lates calcarifer with chronic bacterial enteritis developed severe hypoglycaemia, had low circulating total plasma protein, and suffered high mortality within 24 hours post-stocking. Hypoglycaemia and low circulating blood proteins disrupt osmoregulation and exacerbate dehydration, which is fatal in fish in sea water. Dying L. calcarifer tested PCR positive for scale drop disease virus (SDDV) at 28 days post-stocking showed a 10-fold elevation of white blood cell counts, severe vasculitis, and obstruction of blood supply to major organs. Destruction of important immune organs such as spleen is a hallmark of SDDV infection that explains high incidences of opportunistic Vibrio harveyi infections in 61% of fish with SDDV. Overall, this study reiterates the importance of stocking disease-free fish and reducing transport stress.

Host ecology and biogeography drive parasite community composition in Atlantic killifishes

Understanding the mechanisms of parasite community assembly can be confounded by phylogenetic distance among host species. Addressing this requires focusing on parasite communities within closely related taxa. Thus, we took a macroecological approach to examining parasite community structure within Killifish species in the genus Fundulus to disentangle the effects of host phylogeny and ecological variables. We constructed a database of parasite communities within Fundulus species from 15 published and unpublished surveys covering the Atlantic coast of the US and Canada. The database was expanded by sampling sites in underrepresented provinces and states, totaling 10 Fundulus species from 57 unique geographic sites. Univariate analysis of observed parasite species richness among Fundulus populations in the dataset found that latitude, climate type, and salinity were the dominant factors determining parasite species richness. Multivariate analysis found that host species and landscape type were the most important factors in determining the similarity of parasite assemblages. Unexpectedly, parasite species richness decreased in low latitudes, and host phylogenetic distance was not found to be a significant factor in the similarity of parasite communities. These results indicate that commonly reported large-scale drivers of parasite community structure, such as latitude and phylogeny, could have diminished significance at the host genus level relative to host ecology, biogeography, and local landscape factors.

Disentangling the determinants of symbiotic species richness in native and invasive gammarids (Crustacea, Amphipoda) of the Baltic region

Dispersal of alien species is a global problem threatening native biodiversity. Co-introduction of non-native parasites and pathogens adds to the severity of this threat, but this indirect impact has received less attention. To shed light on the key factors determining the richness of microorganisms in native and invasive host species, we compared symbiotic (parasitic and epibiotic) communities of gammarids across different habitats and localities along the Baltic coast of Poland. Seven gammarid species, two native and five invasive, were sampled from 16 freshwater and brackish localities. Sixty symbiotic species of microorganisms of nine phyla were identified. This taxonomically diverse species assemblage of symbionts allowed us to assess the effect of host translocation and regional ecological determinants driving assembly richness in the gammarid hosts. Our results revealed that (i) the current assemblages of symbionts of gammarid hosts in the Baltic region are formed by native and co-introduced species; (ii) species richness of the symbiotic community was higher in the native Gammarus pulex than in the invasive hosts, probably reflecting a process of species loss by invasive gammarids in the new area and the distinct habitat conditions occupied by G. pulex and invasive hosts; (iii) both host species and locality were key drivers shaping assembly composition of symbionts, whereas habitat condition (freshwater versus brackish) was a stronger determinant of communities than geographic distance; (iv) the dispersion patterns of the individual species richness of symbiotic communities were best described by Poisson distributions; in the case of an invasive host, the dispersion of the rich species diversity may switch to a right-skewed negative binomial distribution, suggesting a host-mediated regulation process. We believe this is the first analysis of the symbiotic species richness in native and invasive gammarid hosts in European waters based on original field data and a broad range of taxonomic groups including Microsporidia, Choanozoa, Ciliophora, Apicomplexa, Platyhelminthes, Nematoda, Nematomorha, Acanthocephala and Rotifera, to document the patterns of species composition and distribution.

Sensitivity of bipartite network analyses to incomplete sampling and taxonomic uncertainty

Bipartite network analysis is a powerful tool to study the processes structuring interactions in ecological communities. In applying the method, it is assumed that the sampled interactions provide an accurate representation of the actual community. However, acquiring a representative sample may be difficult as not all species are equally abundant or easily identifiable. Two potential sampling issues can compromise the conclusions of bipartite network analyses: failure to capture the full range of interactions (sampling completeness) and use of a taxonomic level higher than species to evaluate the network (taxonomic resolution). We asked how commonly used descriptors of bipartite antagonistic communities (modularity, nestedness, connectance, and specialization [H₂ ']) are affected by reduced host sampling completeness, parasite taxonomic resolution, and their crossed effect, as they are likely to co-occur. We used a quantitative niche model to generate weighted bipartite networks that resembled natural host-parasite communities. The descriptors were more sensitive to uncertainty in parasite taxonomic resolution than to host sampling completeness. When only 10% of parasite taxonomic resolution was retained, modularity and specialization decreased by ~76% and ~12%, respectively, and nestedness and connectance increased by ~114% and ~345% respectively. The loss of taxonomic resolution led to a wide range of possible communities, which made it difficult to predict its effects on a given network. With regards to host sampling completeness, standardized nestedness, connectance, and specialization were robust, whereas modularity was sensitive (~30% decrease). The combination of both sampling issues had an additive effect on modularity. In communities with low effort for both sampling issues (50%-10% of sampling completeness and taxonomic resolution), estimators of modularity, and nestedness could not be distinguished from those of random assemblages. Thus, the categorical description of communities with low sampling effort (e.g., if a community is modular or not) should be done with caution. We recommend evaluating both sampling completeness and taxonomic certainty when conducting bipartite network analyses. Care should also be exercised when using nonrobust descriptors (the four descriptors for parasite taxonomic resolution; modularity for host sampling completeness) when sampling issues are likely to affect a dataset.

Gastrointestinal parasites in wild rodents in Chiloé Island-Chile

Gastrointestinal parasites are well-documented in small mammals from north-central Chile, but little is known about endoparasites of rodents in southern Chile. A survey was conducted between January and February 2018 to evaluate gastrointestinal parasites and risk factors of wild rodents that live in rural areas in Northern Chiloé Island, Chile. A total of 174 fecal samples from rodents of six native and one introduced species were collected and examined using the Mini-FLOTAC method. Also, 41 individuals of four native wild rodent species were examined furtherly to determinate adult parasites from gastrointestinal tracts. The overall prevalence of endoparasites was 89.65% (156). Helminth egg types included: Rodentolepis spp., Capillariidae, Trichuris sp., Syphacia sp., oxyurid-type eggs, Strongyloides sp., Spirurid-type eggs, Strongilid-type eggs, Moniliformis sp., and an unidentified nematode egg and larvae. Protozoa comprised coccidia, amoeba, and unidentified cysts. From necropsies, adult parasites involved Syphacia sp. Trichuris sp., Protospirura sp. and Physaloptera sp. In Abrothrix olivacea, individuals with low-body-mass index exhibited reduced infection probability for Spirurid-type and Strongilid-type eggs. Some parasites in this study may affect human health. In rural settings where environmental conditions are changing, more research should be undertaken to understand parasitic infections in wildlife and implications for public health and conservation.

Livoneca redmanii Leach, 1818 (Cymothoidae) a parasitic isopod infesting the gills of the European seabass, Dicentrarchus labrax (Linnaeus, 1758): morphological and molecular characterization study

Background

Prevalence, morphology, and molecular characteristics of isopodiosis in the European seabass, Dicentrarchus labrax, in Egypt were assessed using light and electron microscopy and polymerase chain reaction targeting the mitochondrial COI (cytochrome oxidase c) gene.

Results

Adult parasites were found mainly in the branchial cavity between gill arches and to a lesser extent in the buccal cavity. They were morphologically identified as the Cymothoidae Livoneca redmanii Leach, 1818 (Crustacea: Isopoda). Obviously, a 23% prevalence rate of isopods was reported in D. labrax from Egyptian Mediterranean waters. Destructive and degenerative necrotic alterations with complete sloughing of gill lamellae of the infested fish were observed. DNA sequencing of the mitochondrial COI gene confirmed the identification of the parasite which was deposited in the GenBank under accession numbers MW600099, MZ208984, and MZ208985. Furthermore, the phylogenetic analysis demonstrated that parasites emerged from a monophyletic clade closely affiliated with L. redmanii and were clearly distinguished from other isopod genospecies.

Conclusion

The present investigation addresses L. redmanii infestation in D. labrax in Egypt and affirmed morphological properties via the scanning electron microscopy (SEM) and molecular characteristics of this isopod species. The drastic effects of this parasite on the infected fish were proven both clinically and histopathologically.

Diversity and distribution of ectoparasite taxa associated with Micaelamys namaquensis (Rodentia: Muridae), an opportunistic commensal rodent species in South Africa

South Africa boasts a rich diversity of small mammals of which several are commensal and harbour parasites of zoonotic importance. However, limited information is available on the parasite diversity and distribution associated with rodents in South Africa. This is particularly relevant for Micaelamys namaquensis (Namaqua rock mouse), a regionally widespread and locally abundant species that is often commensal. To address the paucity of data, the aims of the study were to record the ectoparasite diversity associated with M. namaquensis and develop distribution maps of lice and mites associated with M. namaquensis and other rodents in South Africa. Micaelamys namaquensis individuals (n = 216) were obtained from 12 localities representing multiple biomes during 2017–2018. A total of 5591 ectoparasites representing 5 taxonomic groups – fleas, lice, mesostigmatid mites, chiggers and ticks was recorded. These consisted of at least 57 taxa of which ticks were the most speciose (20 taxa). Novel contributions include new host and locality data for several ectoparasite taxa and undescribed chigger species. Known vector species were recorded which included fleas (Ctenocephalides felis, Dinopsyllus ellobius and Xenopsylla brasiliensis) and ticks (Haemaphysalis elliptica, Rhipicephalus appendiculatus and Rhipicephalus simus). Locality records indicate within-taxon geographic differences between the 2 louse species and the 2 most abundant mite species. It is clear that M. namaquensis hosts a rich diversity of ectoparasite taxa and, as such, is an important rodent species to monitor in habitats where it occurs in close proximity to humans and domestic animals.

Prevalence and molecular identification of zoonotic Anisakis and Pseudoterranova species in fish destined to human consumption in Chile

Zoonotic larvae of the family Anisakidae found in several fish species represent a serious risk in public health since they may cause food-borne anisakidosis in humans. Chile has culinary preferences including eating raw fish in many traditional preparations. In the present study, a total of 180 fish specimens representing three different fish species, i.e., Chilean hake (Merluccius gayi), snoek (Thyrsites atun), and sea bream (Brama australis), were caught at central coast of Chile. Parasitological examination was performed on musculature and abdominal cavity for subsequent extraction and quantification of anisakid larvae. Estimation of infection parameters, such as prevalence, was performed indicating 100% (CI: 0.94-1.0) prevalence of anisakid L3 in Chilean hakes and snoeks. Moreover, sea breams reached a prevalence of 35% (CI: 0.23-0.48). Prevalence of anisakid larvae in muscle was also analyzed showing values of 18.6% (CI: 0.097-0.309) in Chilean hakes, 15% (CI: 0.07-0.26) in snoeks, and 1.7% (CI: 0-0.089) in sea breams. Meanwhile, prevalence of anisakid larvae in internal organs showed highest values for peritoneum (100% and 83.3%) for snoeks and Chilean hakes, respectively, for liver (96.7%) and gonads (86.6%) in Chilean hakes, and for intestine (98.3%) in snoeks. Molecular analysis of collected anisakid L3 unveiled presence of two potentially zoonotic nematode species, i.e., Pseudoterranova cattani and Anisakis pegreffii. P. cattani was found in Chilean hakes and snoeks being the first molecular host species report for Chilean snoeks. Besides, A. pegreffii was also identified in these species being the first molecular report on this regard. These findings are relevant for better understanding of epidemiology of anisakiasis in Chilean coasts and for public health issues considering potential risk of human population due to its culinary preferences in eating raw fish.

Patterns of monogenean abundance in native and invasive populations of Planiliza haematocheila (Teleostei: Mugilidae): interactions between climate and host defence mechanisms explain parasite release

One of the most intriguing questions in invasive biology is how an introduced species changes its population parameters in a new environment. Translocation of free-living species commonly results in co-introduction of their parasites. The current study focuses on the abundance pattern of the monogenean parasite Ligophorus llewellyni of the pacific so-iuy mullet, Planiliza haematocheila, across the native and introduced distribution ranges. We evaluated parasite release by the so-iuy mullet by comparing abundance patterns of L. llewellyni under effects of the host length, water temperature and month of the year in the Sea of Japan and the Sea of Azov. Generalised additive models applied to analysis of parasite abundance data showed that relationships between the mean number of L. llewellyni and the three tested independent variables were not linear. Our results suggest that the introduced host lost a large amount of parasite abundance due to the effect of warm climate in a new region, which is mediated by host defence mechanisms. The abundance of L. llewellyni rapidly rose in autumn, as fish activity and immune response decrease, reached the maximum in winter and began to fall in spring as a warm temperature facilitates the fish immune defence. The abundance of L. llewellyni showed an initial increase in response to fish growth and reached an asymptote. The response curves built for native and introduced regions reached an asymptote at different fish body lengths, reflecting the fish growth rate, which is higher in the introduced range of P. haematocheila. We found that the carried parasite species holds the same trend in relationships compared with its native area, between the mean number of monogeneans per host and independent variables increasing abundance with fish length, low temperature and cold months. Our results open new perspectives for future research on statistical modelling of parasite abundance across native and introduced distribution ranges in order to provide deeper insight into host-parasite interactions of invasive populations.

Estimating the Optimum Coverage and Quality of Amplicon Sequencing With Taylor's Power Law Extensions

Theoretical analysis of DNA sequencing coverage problem has been investigated with complex mathematical models such as Lander-Waterman expectation theory and Stevens' theorem for randomly covering a domain. In the field of metagenomics sequencing, several approaches have been developed to estimate the coverage of whole-genome shotgun sequencing, but surprisingly few studies addressed the coverage problem for marker-gene amplicon sequencing, for which arguably the biggest challenge is the complexity or heterogeneity of microbial communities. Overall, much of the practice still relies variously on speculation, semi-empirical and ad hoc heuristic models. Conservatively raising coverage may ensure the success of sequencing project, but often with unduly cost. In this study, we borrow the principles and approaches of optimum sampling methodology originated in applied entomology, achieved equal success in plant pathology and parasitology, and plays a critical role in the decision-making for global crop and forest protection against economic pests since 1970s when the pesticide crisis and food safety concerns forced the reduction of pesticide usages, which in turn requires reliable sampling techniques for monitoring pest populations. We realized that sequencing coverage is essentially an optimum sampling problem. Perhaps the only essential difference between sampling insects and sampling microbiome is the "instrument" used. In traditional entomology, it is usually humans that visually count the numbers of insects, occasionally aided by binocular microscope. In the metagenomics research, it is the DNA sequencers that count the number of DNA reads. Furthermore, a key theoretical foundation for sampling insect pest populations, i.e., Taylor's power law, which achieved rare status of ecological law and captures the population aggregation, has been recently extended to the community level for describing community heterogeneity and stability, namely, Taylor's power law extensions (TPLEs). This theoretical advance enabled us to develop a novel approach to assessing the quality and determining optimum reads (coverage) of amplicon sequencing operations. Specifically, two applications were developed: one is, in hindsight, to assess the quality of amplicon sequencing operation in terms of the precision and confidence levels. Another is, prior to sequencing operation, to determine the minimum sequencing efforts for a sequencing project to achieve preset precision and confidence levels.

Measuring aggregation in parasite populations

Aggregation, a fundamental feature of parasite distributions, has been measured using a variety of indices. We use the definition that parasite-host system A is more aggregated than parasite-host system B if any given proportion of the parasite population is concentrated in a smaller proportion of the host population A than of host population B. This leads to indices based on the Lorenz curve such as the Gini index (Poulin's D), coefficient of variation and the Hoover index, all of which measure departure from a uniform distribution. The Hoover index is particularly useful because it can be interpreted directly in terms of parasites and hosts. An alternative view of aggregation is degree of departure from a Poisson (or random) distribution, as used in the index of dispersion and the negative binomial k. These and Lloyd's mean crowding index are reinterpreted and connected back to Lorenz curves. Aggregation has occasionally been defined as the slope from Taylor's law, although the slope appears unrelated to other indices. The Hoover index may be the method of choice when data points are available, and the coefficient of variation when only variance and mean are given.

Occurrence of Anisakis and Hysterothylacium Nematodes in Atlantic Chub Mackerels from Libyan Coasts

The occurrence of zoonotic parasitic nematodes in Atlantic chub mackerels (Scomber colias syn. Scomber japonicus) from Libyan waters was investigated, using epizootiological estimations and molecular specific characterization of larvae. Nematodes belonging to Anisakis spp., the main etiological agent of anisakiasis in Mediterranean waters, and to Hysterothylacium spp. so far considered not pathogenic to humans, were detected. Prevalence values were generally high in visceral cavities (over 40 % for both parasites) while were low for Anisakis (around 1 %) and null for Hysterothylacium in muscles. Moreover, the level of infections was associated with seasons, a feature potentially useful to plan fishing captures and to elaborate risk mitigation strategies for anisakiasis. Species molecular identification performed on a subsample described the presence of Hysterothylacium aduncum as the predominant species, along with Anisakis pegreffii and the hybrids (A. pegreffii and A. simplex sensu stricto), thus posing a concrete zoonotic risk following the consumption of such fish species as a raw preparation.

Heterogeneity in helminth infections: factors influencing aggregation in a simple host-parasite system

The almost universally-occurring aggregated distributions of helminth burdens in host populations have major significance for parasite population ecology and evolutionary biology, but the mechanisms generating heterogeneity remain poorly understood. For the direct life cycle monogenean Discocotyle sagittata infecting rainbow trout, Oncorhynchus mykiss, variables potentially influencing aggregation can be analysed individually. This study was based at a fish farm where every host individual becomes infected by D. sagittata during each annual transmission period. Worm burdens were examined in one trout population maintained in isolation for 9 years, exposed to self-contained transmission. After this year-on-year recruitment, prevalence was 100% with intensities 10-2628, mean 576, worms per host. Parasite distribution, amongst hosts with the same age and environmental experience, was highly aggregated with variance to mean ratio 834 and negative binomial parameter, k, 0.64. The most heavily infected 20% of fish carried around 80% of the total adult parasite population. Aggregation develops within the first weeks post-infection; hosts typically carried intensities of successive age-specific cohorts that were consistent for that individual, such that heavily-infected individuals carried high numbers of all parasite age classes. Results suggest that host factors alone, operating post-infection, are sufficient to generate strongly overdispersed parasite distributions, rather than heterogeneity in exposure and initial invasion.

Prevalence and Risk of Anisakid Larvae in Fresh Fish Frequently Consumed in Spain: An Overview

Anisakidosis is a fish-borne zoonosis caused by parasitic nematodes of the family Anisakidae, of which the species belonging to Anisakis simplex complex are the most representative. It is considered an emerging disease in Spain. The objective of this study is to analyse the presence of larvae in fish frequently consumed in Spanish supermarkets, inferring the risk of infection. In total 1,786 specimens of 9 different fish species, from two geographical origins (Atlantic and Mediterranean), acquired fresh and not eviscerated were examined for anisakid nematodes. Analysis showed that 33.7% of the samples were parasitized by Anisakis larvae. The horse mackerel (Trachurus trachurus) presented the highest total prevalence (66.0%), followed by the silver hake (Merluccius bilinearis) (59.5%), the mackerel (Scomber scombrus) (58.4%), the blue whiting (Micromesistius poutassou) (53.9%) and the European hake (Merlucius merlucius) (45.0%). In general, the prevalence was higher in Atlantic than in Mediterranean fish. In all the species analysed, a higher presence of the parasite was detected in the viscera than in the flesh, although in the most parasitized species a noteworthy prevalence and abundance was observed in the flesh. In conclusion, risk factors, like fish species and origin, should be considered by consumers, in addition of following the recommendations established by Commission Regulation (EU) No1276/2011 and the Spanish Royal Decree 1420/2006.

New Data on Endohelminth Communities of Barbel Barbus Barbus from the Bulgarian Part of the River Danube

Species diversity and composition of the parasite communities of barbel (Barbus barbus) at the infracommunity and component community levels were studied in the Lower Danube River, Bulgaria. During the two-year investigations, five parasite species have been found in 92 host fish: Bathybothrium rectangulum (Cestoda), Acanthocephalus anguillae and Pomphorhynchus laevis (Acanthocephala) and larval stages of Contracaecum sp. and Raphidascaris acus (Nematoda). Bathybothrium rectangulum and R. acus found in barbel represented new host records in Bulgaria. Parasite communities of barbel were species-poor and highly unbalanced. Pomphorhynchus laevis represented the dominant (core) species (prevalence 98.9 %), the second most frequent component parasite was Contracaecum sp. (P = 14.1 %) and remaining three species occurred only accidentally in barbels. Differences in species richness, prevalence, intensity of infection and ecological indices between individual seasons (spring, summer, autumn) were statistically signifi cant, but considerably affected by unequal species structure of communities with highly prevailing P. laevis. Low parasite species diversity of barbel and low values of most ecological indices, when compared with previous studies in this area (or other Bulgarian parts of the River Danube) might indicate that environmental conditions are impaired and thus, not favourable for the development of barbel parasites (primarily to their intermediate host survival) in the Lower Danube River of Bulgaria.