Monitoring Infection and Antibiotic Treatment in the Skin Microbiota of Farmed European Seabass (Dicentrarchus Labrax) Fingerlings.

The microbiota of fish skin, the primary barrier against disease, is highly dynamic and modulated by several factors. In fish aquaculture, disease outbreaks occur mainly during early-life stages, with associated high economic losses. Antibiotic treatments sometimes remain the best option to control bacterial diseases, despite many reported negative impacts of its use on fish and associated microbiota. Notwithstanding, studies monitoring the effects of disease and antibiotic treatment on the microbiota of fingerlings are scarce. We sequenced the bacterial 16S rRNA V4 gene region using a metabarcoding approach to assess the impact of a mixed infection with Photobacterium damselae ssp. piscicida and Vibrio harveyi and subsequent antibiotic treatment with flumequine, on the skin microbiota of farmed seabass (Dicentrarchus labrax) fingerlings. Both infection and antibiotic treatment led to a significant increase in bacterial diversity and core microbial communities and impacted microbiome structure. Dysbiosis was confirmed by changes in the abundance of potential pathogenic and opportunistic bacterial taxa. Skin bacterial metabolic function was also significantly affected by flumequine administration, suggesting a detriment to fish skin health. Our results add to an increasing body of literature, showing how fish microbiome response to infection and antibiotics cannot be easily predicted.

The potential role of the sphaeractinomyxon collective group (Cnidaria, Myxozoa) in the life cycle of mugiliform-infecting myxobolids, with the morphological and molecular description of three new types from the oligochaete Tubificoides insularis.

Three new types of sphaeractinomyxon (Cnidaria, Myxozoa) are described from the coelomic cavity of the marine oligochaete Tubificoides insularis, collected from the Alvor estuary, Algarve, Portugal. Another known type is also registered from this location and host: Sphaeractinomyxon type 10 of Rangel et al. (2016), which was originally described from the marine oligochaete Tubificoides pseudogaster in the Aveiro estuary, Portugal. Phylogenetic analysis revealed the case isolates and all other available SSU rRNA sequences of sphaeractinomyxon clustering within a clade containing Myxobolus spp. that infect mullets, thus suggesting that this collective group plays a role in the life cycle of mugiliform-infecting myxobolids. Also clustering within this clade were all types of tetraspora and endocapsa, calling into question the distinctiveness of these collective groups. Acknowledging a previous work showing that the pansporocysts of sphaeractinomyxon produce a variable number of actinospores, we suggest that the tetraspora collective group be deemed invalid and its types transferred to sphaeractinomyxon. In turn, endocapsa requires validation through the description of new types truly differentiating them from sphaeractinomyxon.

Wireless Communication Technologies for Safe Cooperative Cyber Physical Systems.

Cooperative Cyber-Physical Systems (Co-CPSs) can be enabled using wireless communication technologies, which in principle should address reliability and safety challenges. Safety for Co-CPS enabled by wireless communication technologies is a crucial aspect and requires new dedicated design approaches. In this paper, we provide an overview of five Co-CPS use cases, as introduced in our SafeCOP EU project, and analyze their safety design requirements. Next, we provide a comprehensive analysis of the main existing wireless communication technologies giving details about the protocols developed within particular standardization bodies. We also investigate to what extent they address the non-functional requirements in terms of safety, security and real time, in the different application domains of each use case. Finally, we discuss general recommendations about the use of different wireless communication technologies showing their potentials in the selected real-world use cases. The discussion is provided under consideration in the 5G standardization process within 3GPP, whose current efforts are inline to current gaps in wireless communications protocols for Co-CPSs including many future use cases.

Tetractinomyxon stages genetically consistent with Sphaerospora dicentrarchi (Myxozoa: Sphaerosporidae) found in Capitella sp. (Polychaeta: Capitellidae) suggest potential role of marine polychaetes in parasite's life cycle.

Known life cycles of myxosporean parasites have two hosts, but very few life cycles have been disclosed, especially in the marine environment. Sphaerospora dicentrarchi Sitjà-Bobadilla and Álvarez-Pellitero, 1992 is a systemic parasite from the European seabass, Dicentrarchus labrax (Linnaeus, 1758), a highly valuable commercial fish. It affects its health, leading to aquaculture production losses. During 2013 and 2014, an actinospore survey was conducted in a total of 5942 annelids collected from a fish farm in Algarve and from the Aveiro Estuary, in Portugal. A new tetractinomyxon actinospore was found in a capitellid polychaete, belonging to the genera Capitella collected at the fish farm. The tetractinomyxons were pyriform measuring 11·1 ± 0·7 µm in length and 7·2 ± 0·4 µm in width, and presented three rounded polar capsules measuring 2·4 ± 0·3 µm in diameter. The molecular analysis of the 18S rRNA gene sequences from the tetractinomyxons revealed a similarity of 100% with the DNA sequences deposited in the GenBank from S. dicentrarchi myxospores collected from the European seabass and the spotted seabass in the same fish farm and 99·9% similarity with the DNA sequence obtained from the myxospores found infecting the European seabass in the Aveiro Estuary. Therefore, the new tetractinomyxons are inferred to represent the actinospore phase of the S. dicentrarchi life cycle.

Ultrastructure and phylogeny of Ceratomyxa diplodae (Myxosporea: Ceratomyxidae), from gall bladder of European seabass Dicentrarchus labrax.

The myxosporean parasite Ceratomyxa diplodae Lubat et al. 1989 sensu Sitjà-Bobadilla & Álvarez-Pellitero, 1993, originally described from the annular seabream Diplodus annularis in the Adriatic Sea, has subsequently been reported from several other sparid hosts, and also a moronid fish, the European seabass Dicentrarchus labrax from the Mediterranean Sea. Here, molecular identity and additional morphological data are given for this parasite infecting the gall bladder of D. labrax in a southern Portuguese fish farm. In the bile, disporic plasmodia were spherical to subspherical with a smooth surface membrane. Most myxospores were crescent-shaped, 5.1 ± 0.5 (4.8-6.7) µm long (mean ± SD) and 21.9 ± 1.0 (20.4-23.9) µm thick; a few were more arcuate, 5.7 ± 0.4 (5.3-6.3) µm long and 17.3 ± 1.0 (16.3-19.1) µm thick. The wall consisted of 2 symmetrical valves united along a slightly curved suture line, with moderately tapering to rounded ends. Two spherical polar capsules, measuring 2.9 ± 0.3 (2.5-3.4) µm in diameter, contained a polar filament forming 8 to 9 coils organized in 2 rows. Host species, tissue tropism, and myxospore morphology supported species identification. Phylogenetic analyses of the small subunit ribosomal RNA sequence positioned the parasite among most sparid-infecting Ceratomyxa spp., suggesting the existence of a common ancestor for these species. The acquisition of molecular data from infections of C. diplodae in its original host and in other sparids is essential in order to ascertain if the morphological and biological variations found among reports of this parasite are intra- or inter-specific.

The life cycle of Ortholinea auratae (Myxozoa: Ortholineidae) involves an actinospore of the triactinomyxon morphotype infecting a marine oligochaete.

Actinospores released from the marine oligochaete Limnodriloides agnes inhabiting a Southern Portuguese fish farm are molecularly recognized as developmental stages of the life cycle of Ortholinea auratae, a myxosporean parasite that infects the urinary bladder of Sparus aurata. The molecular analysis of the 18S rRNA gene reveals a similarity of 99.9 to 100 % of the actinospores analyzed to the myxospores of O. auratae. The actinospores belong to the triactinomyxon morphotype and occur in groups of eight within pansporocysts that develop in the intestinal epithelium of the oligochaete host. This is the first record of a myxosporean using an oligochaete as its invertebrate host in the marine environment.

Ortholinea auratae n. sp. (Myxozoa, Ortholineidae) infecting the urinary bladder of the gilthead seabream Sparus aurata (Teleostei, Sparidae), in a Portuguese fish farm.

A new myxosporean species, Ortholinea auratae n. sp., is described from the gilthead seabream, Sparus aurata Linnaeus, 1758 (Teleostei, Sparidae) from a fish farm in Algarve, Portugal. Plasmodia and spores were found in the urinary bladder and, less frequently, in the posterior kidney. Plasmodia were polymorphic, presenting an irregular cellular membrane due to the presence of several peripheral projections, which in turn were covered by a glycocalyx-like sheet. Mature spores were subspherical in valvular view and ellipsoidal in sutural view, measuring 9.0 ± 0.3 (8.2-10.1) µm in length, 8.3 ± 0.4 (7.5-9.1) µm in width, and 7.2 ± 0.5 (6.3-8.4) µm in thickness. The two valves comprising the spores displayed an intricate pattern of surface ridges and were also enveloped by a glycocalyx-like sheet. Two subspherical polar capsules, 3.2 ± 0.1 (2.9-3.6) µm long and 2.7 ± 0.1 (2.4-2.9) µm wide, were located at the anterior pole and displayed divergent orientation. The polar filament coiled in three to four turns. The comprehensive analysis of the parasite's ultrastructural observations and molecular data for the small subunit (SSU) ribosomal DNA (rDNA) gene identify O. auratae n. sp. as a new species, clustering together with other myxosporeans infecting the excretory system to form a subclade of the main freshwater clade.

Ultrastructural and phylogenetic description of Zschokkella auratis sp. nov. (Myxozoa), a parasite of the gilthead seabream Sparus aurata.

A new myxosporean, Zschokkella auratis sp. nov., infecting the gall bladder of the gilthead seabream Sparus aurata in a southern Portuguese fish farm, is described using microscopic and molecular procedures. Plasmodia and mature spores were observed floating free in the bile. Plasmodia, containing immature and mature spores, were characterized by the formation of branched glycostyles, apparently due to the release of segregated material contained within numerous cytoplasmic vesicles. Mature spores were ellipsoidal in sutural view and slightly semicircular in valvular view, with rounded ends, measuring 9.5 ± 0.3 SD (8.7-10.3) µm in length and 7.1 ± 0.4 (6.5-8.0) µm in width/thickness. The spore wall was composed of 2 symmetrical valves united along a slightly curved suture line, each displaying 10 to 11 elevated surface ridges. Two equal subspherical polar capsules, 3.7 ± 0.3 (3.0-4.1) µm long and 3.0 ± 0.2 (2.6-3.2) µm wide, were located separately at the spore's extremities. Each polar capsule contained a polar filament forming 4 to 5 coils. The sporoplasm was binucleate and contained numerous sporoplasmosomes. Morphological data, tissue tropism, and molecular analysis of the small subunit rDNA gene identified this parasite as a new species of Zschokkella. Maximum parsimony, neighbor-joining, and maximum likelihood inferences clustered the parasite in a subclade containing other Zschokkella species parasitizing the gall bladder of brackish and marine fish hosts, located within the coelozoic clade of the major freshwater clade; this supports the existence of a marine subclade within the 'freshwater' clade, as well as the existence of a correlation between tissue tropism and myxosporean phylogeny.

Occurrence of two myxosporean parasites in the gall bladder of white seabream Diplodus sargus (L.) (Teleostei, Sparidae), with the morphological and molecular description of Ceratomyxa sargus n. sp.

Myxosporeans are widespread cnidarian parasites that usually parasitize fish as part of their complex life cycle, thus constituting a potential threat for the aquaculture industry. White seabream Diplodus sargus (L.) is a commercially valuable sparid fish reared in Southern European aquacultures. Nonetheless, knowledge on myxosporean infections potentially harming the sustainable production of this fish is extremely limited. In this study, a myxosporean survey was conducted on D. sargus specimens reared in two Southern Portuguese fish farms. Two coelozoic myxosporeans were detected infecting the gall bladder, and are herein reported based on microscopic and molecular procedures: Ceratomyxa sargus n. sp. and Zschokkella auratis Rocha et al., 2013, previously described from reared stocks of gilthead seabream Sparus aurata in the same geographic locality. Ceratomyxa sargus n. sp. is the 12th species of the genus to be reported from Southern European sparids, reinforcing a substantial radiation of Ceratomyxa within this fish family and geographic region. SSU rRNA-based Bayesian inference and maximum likelihood analyses revealed C. sargus n. sp. positioned separately from other sparid-infecting Ceratomyxa spp. reported from Southern European countries, demonstrating that this species does not share a more immediate common ancestor with its closest relatives based on host affinity and geography. The recognition of a novel sparid-infecting lineage within the Ceratomyxa clade strengthens the contention that this genus entered sparid fish multiple times, namely in the Southern European region. The identification of Zschokkella auratis infections in D. sargus demonstrates that host shift has occurred among sparids reared in the Southern Portuguese coast. This agrees with the broad host specificity that is usually attributed to this genus, and that may be suggested to be the outcome of the capacity of the Zschokkella morphotype to undergo host shift/switch based on our findings and the limited molecular data available for this genus. Thus, a better understanding of Zschokkella host-associated diversification and dispersal mechanisms requires the increasing availability of molecular data from infections of the same species occurring in multiple hosts and geographical locations.

Effects of aging on the skin and gill microbiota of farmed seabass and seabream.

BACKGROUND: Important changes in microbial composition related to sexual maturation have been already reported in the gut of several vertebrates including mammals, amphibians and fish. Such changes in fish are linked to reproduction and growth during developmental stages, diet transitions and critical life events. We used amplicon (16S rRNA) high-throughput sequencing to characterize the skin and gill bacterial microbiota of farmed seabass and seabream belonging to three different developmental age groups: early and late juveniles and mature adults. We also assessed the impact of the surrounding estuarine water microbiota in shaping the fish skin and gill microbiota. RESULTS: Microbial diversity, composition and predicted metabolic functions varied across fish maturity stages. Alpha-diversity in the seabass microbiota varied significantly between age groups and was higher in older fish. Conversely, in the seabream, no significant differences were found in alpha-diversity between age groups. Microbial structure varied significantly across age groups; moreover, high structural variation was also observed within groups. Different bacterial metabolic pathways were predicted to be enriched in the microbiota of both species. Finally, we found that the water microbiota was significantly distinct from the fish microbiota across all the studied age groups, although a high percentage of ASVs was shared with the skin and gill microbiotas. CONCLUSIONS: We report important microbial differences in composition and potential functionality across different ages of farmed seabass and seabream. These differences may be related to somatic growth and the onset of sexual maturation. Importantly, some of the inferred metabolic pathways could enhance the fish coping mechanisms during stressful conditions. Our results provide new evidence suggesting that growth and sexual maturation have an important role in shaping the microbiota of the fish external mucosae and highlight the importance of considering different life stages in microbiota studies.

Longitudinal sampling of external mucosae in farmed European seabass reveals the impact of water temperature on bacterial dynamics.

Fish microbiota are intrinsically linked to health and fitness, but they are highly variable and influenced by both biotic and abiotic factors. Water temperature particularly limits bacterial adhesion and growth, impacting microbial diversity and bacterial infections on the skin and gills. Aquaculture is heavily affected by infectious diseases, especially in warmer months, and industry practices often promote stress and microbial dysbiosis, leading to an increased abundance of potentially pathogenic bacteria. In this regard, fish mucosa health is extremely important because it provides a primary barrier against pathogens. We used 16 rRNA V4 metataxonomics to characterize the skin and gill microbiota of the European seabass, Dicentrarchus labrax, and the surrounding water over 12 months, assessing the impact of water temperature on microbial diversity and function. We show that the microbiota of external mucosae are highly dynamic with consistent longitudinal trends in taxon diversity. Several potentially pathogenic genera (Aliivibrio, Photobacterium, Pseudomonas, and Vibrio) were highly abundant, showing complex interactions with other bacterial genera, some of which with recognized probiotic activity, and were also significantly impacted by changes in temperature. The surrounding water temperature influenced fish microbial composition, structure and function over time (days and months). Additionally, dysbiosis was more frequent in warmer months and during transitions between cold/warm months. We also detected a strong seasonal effect in the fish microbiota, which is likely to result from the compound action of several unmeasured environmental factors (e.g., pH, nutrient availability) beyond temperature. Our results highlight the importance of performing longitudinal studies to assess the impact of environmental factors on fish microbiotas.

Effects of disease, antibiotic treatment and recovery trajectory on the microbiome of farmed seabass (Dicentrarchus labrax).

The mucosal surfaces of fish harbour microbial communities that can act as the first-line of defense against pathogens. Infectious diseases are one of the main constraints to aquaculture growth leading to huge economic losses. Despite their negative impacts on microbial diversity and overall fish health, antibiotics are still the method of choice to treat many such diseases. Here, we use 16 rRNA V4 metataxonomics to study over a 6 week period the dynamics of the gill and skin microbiomes of farmed seabass before, during and after a natural disease outbreak and subsequent antibiotic treatment with oxytetracycline. Photobacterium damselae was identified as the most probable causative agent of disease. Both infection and antibiotic treatment caused significant, although asymmetrical, changes in the microbiome composition of the gills and skin. The most dramatic changes in microbial taxonomic abundance occurred between healthy and diseased fish. Disease led to a decrease in the bacterial core diversity in the skin, whereas in the gills there was both an increase and a shift in core diversity. Oxytetracycline caused a decrease in core diversity in the gill and an increase in the skin. Severe loss of core diversity in fish mucosae demonstrates the disruptive impact of disease and antibiotic treatment on the microbial communities of healthy fish.

Phylogenetic analysis of apicomplexan parasites infecting commercially valuable species from the North-East Atlantic reveals high levels of diversity and insights into the evolution of the group.

BACKGROUND: The Apicomplexa from aquatic environments are understudied relative to their terrestrial counterparts, and the seminal work assessing the phylogenetic relations of fish-infecting lineages is mostly based on freshwater hosts. The taxonomic uncertainty of some apicomplexan groups, such as the coccidia, is high and many genera were recently shown to be paraphyletic, questioning the value of strict morphological and ecological traits for parasite classification. Here, we surveyed the genetic diversity of the Apicomplexa in several commercially valuable vertebrates from the North-East Atlantic, including farmed fish. RESULTS: Most of the sequences retrieved were closely related to common fish coccidia of Eimeria, Goussia and Calyptospora. However, some lineages from the shark Scyliorhinus canicula were placed as sister taxa to the Isospora, Caryospora and Schellakia group. Additionally, others from Pagrus caeruleostictus and Solea senegalensis belonged to an unknown apicomplexan group previously found in the Caribbean Sea, where it was sequenced from the water column, corals, and fish. Four distinct parasite lineages were found infecting farmed Dicentrarchus labrax or Sparus aurata. One of the lineages from farmed D. labrax was also found infecting wild counterparts, and another was also recovered from farmed S. aurata and farm-associated Diplodus sargus. CONCLUSIONS: Our results show that marine fish apicomplexans are diverse, and we highlight the need for a more extensive assessment of parasite diversity in this phylum. Additionally, parasites recovered from S. canicula were recovered as basal to their piscine counterparts reflecting hosts phylogeny.

Ultrastructure and phylogeny of Ceratomyxa auratae n. sp. (Myxosporea: Ceratomyxidae), a parasite infecting the gilthead seabream Sparus aurata (Teleostei: Sparidae).

A new myxosporean parasite is described from the gall bladder of the gilthead seabream Sparus aurata in a Southern Portuguese fish farm, with basis on light and transmission electron microscopy, as well as in molecular procedures. In the bile, young and mature mono- to disporic plasmodia were elliptical and presented smooth surface membranes. Crescent-shaped myxospores measured 6.7±0.7 (5.3-7.6) µm in length and 27.0±3.0 (19.7-31.2) µm in thickness. The myxospore wall was constituted by two symmetrical valves united along a slightly curved suture line, each presenting a lateral projection with a rounded end. Two equal-sized subspherical polar capsules, measuring 3.6±0.2 (2.9-3.8) µm in length and 3.5±0.3 (2.9-3.8) µm in width, were located at the same level, each displaying a polar filament coiled in 5 turns. Molecular analysis of the SSU rRNA gene confirmed the parasite as a new member of the genus Ceratomyxa, making this the fourth report of Ceratomyxa from the gall bladder of S. aurata in the Iberian Peninsula. This reinforces the assumption that species richness of ceratomyxids in South European sparids is high, but the phylogenetic analysis performed disagrees with the existence of a common ancestor for Ceratomyxa species infecting sparid hosts, as well as their clustering according to geographical location. The main Ceratomyxa clade is not monophyletic due to the inclusion of Palliatus indecorus and Pseudoalatospora kovalevae; a situation that will probably be resolved by the taxonomic revision of these genera.

Dynamic cluster scheduling for cluster-tree WSNs.

While Cluster-Tree network topologies look promising for WSN applications with timeliness and energy-efficiency requirements, we are yet to witness its adoption in commercial and academic solutions. One of the arguments that hinder the use of these topologies concerns the lack of flexibility in adapting to changes in the network, such as in traffic flows. This paper presents a solution to enable these networks with the ability to self-adapt their clusters' duty-cycle and scheduling, to provide increased quality of service to multiple traffic flows. Importantly, our approach enables a network to change its cluster scheduling without requiring long inaccessibility times or the re-association of the nodes. We show how to apply our methodology to the case of IEEE 802.15.4/ZigBee cluster-tree WSNs without significant changes to the protocol. Finally, we analyze and demonstrate the validity of our methodology through a comprehensive simulation and experimental validation using commercially available technology on a Structural Health Monitoring application scenario.