Valerio Zupo

Stazione Zoologica Anton Dohrn | Stazione Zoologica · Laboratory of Functional and Evolutionary Ecology

In the present era marine biotechnologies are dominating the world of scientific research assisted by great advances in molecular biology techniques, and microbial community analysis provides useful tool to investigate their diversity and their potential for biotechnological applications. In fact, several marine organisms harbor diverse microbial a...

Polycyclic aromatic hydrocarbons (PAHs) consist of a group of over 100 different organic compounds mainly generated by anthropogenic activities. Because of their low water solubility, they tend to be accumulated in sediment, where their degradation rate is very low. Few studies have been carried out so far to investigate the effects of PAHs on Arte...

In the last decades, it has been demonstrated that marine organisms are a substantial source of bioactive compounds with possible biotechnological applications. Marine sponges, in particular those belonging to the class of Demospongiae, have been considered among the most interesting invertebrates for their biotechnological potential. In this revie...

Communication among marine organisms are generally based on production, transmission, and interpretation of chemical cues. Volatile organic compounds (VOCs) can act as infochemicals, and ocean acidification can alter their production in the source organisms as well as the interpretation of the information they drive to target organisms. Two diatoms...

Monitoring of aquatic ecosystems has been historically accomplished by intensive campaigns of direct measurements (by probes and other boat instruments) and indirect extensive methods such as aero-photogrammetry and satellite detection. These measurements characterized the research in the last century, with significant but limited improvements with...

Phormidium‐like cyanobacteria produce a variety of biologically active molecules. We isolated a free‐living strain of Halomicronema metazoicum, previously known uniquely as a symbiont of marine sponges, and demonstrated that its spent medium was toxic for various protozoans and fish parasites. However, we still ignore if its mats contain constituti...

Polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs) represent the most common pollutants in the marine sediments. Previous investigations demonstrated short-term sublethal effects of sediments polluted with both contaminants on the sea urchin Paracentrotus lividus after 2 months of exposure in mesocosms. In particular, morp...

Although the Mediterranean Sea covers approximately a 0.7% of the world’s ocean area, it represents a major reservoir of marine and coastal biodiversity. Among marine organisms, sponges (Porifera) are a key component of the deep-sea benthos, widely recognized as the dominant taxon in terms of species richness, spatial coverage, and biomass. Sponges...

Hermaphrodite systems offer unique opportunities to study sexual differentiation, due to their high degree of sexual plasticity and to the fact that, unlike gonochoristic systems, the process is not confined to an early developmental stage. In protandric shrimp species, such as Hippolyte inermis and Pandalus platyceros, male differentiation is foll...

In the last decades, the marine environment was discovered as a huge reservoir of novel bioactive compounds, useful for medicinal treatments improving human health and well-being. Among several marine organisms exhibiting biotechnological potential, sponges were highlighted as one of the most interesting phyla according to a wide literature describ...

Seafood by-products, produced by a range of different organisms, such as fishes, shellfishes, squids, and bivalves, are usually discarded as wastes, despite their possible use for innovative formulations of functional foods. Considering that “wastes” of industrial processing represent up to 75% of the whole organisms, the loss of profit may be coup...

Sediment pollution is a major issue in coastal areas, potentially endangering human health and the marine environments. We investigated the short-term sublethal effects of sediments contaminated with polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs) on the sea urchin Paracentrotus lividus for two months. Spiking occurred...

Physiological effects of algal metabolites is a key step for the isolation of interesting bioactive compounds. Invertebrate grazers may be fed on live diatoms or dried, pelletized, and added to compound feeds. Any method may reveal some shortcomings, due to the leaking of wound-activated compounds in the water prior to ingestion. For this reason, e...

Cyanobacteria are a diversified phylum of nitrogen-fixing, photo-oxygenic bacteria able to colonize a wide array of environments. In addition to their fundamental role as diazotrophs, they produce a plethora of bioactive molecules, often as secondary metabolites, exhibiting various biological and ecological functions to be further investigated. Amo...

Adult sea urchins and their embryos are ideal targets to investigate the medium- and long-term effects of various toxic agents, such as organic and inorganic pollutants, to forecast and mitigate their environmental effects. Similarly, small colonial tunicates such as Botryllid ascidians may reveal acute toxicity processes and permit quick responses...

Violet sea squirts are noteworthy model organisms, because they provide insights into various physiologic processes, including cell senescence, ageing, apoptosis and allorecognition. Consequently, their culture is critical to permit experimental studies. Most papers refer to short periods of rearing using various feeds, both living and conserved, m...

Contaminated sediment is a major issue for aquatic environments, but attention must be kept even during remediation activities that can negatively affect resident biota especially when applied in situ. For the first time, the species sensitivity distribution (SSD) approach was applied to amendments used for in situ sediment remediation considering...

Ocean acidification (OA) influences the production of volatile organic compounds (VOCs) by seagrass leaves and their associated epiphytes. We hypothesize that the perception of "odour" produced by seagrass leaf epiphytes will change with seawater acidification, affecting the behaviour of seagrass-associated invertebrates. To test this hypothesis, w...

The sea squirt Ciona robusta is a model organism characterized by a transparent body, exhibiting peculiar physiologic and evolutionary characters. In vitro fertilization and breeding of sea squirts is possible, in order to preserve consistent genetic pools. However, some aspects of its biology, as the feeding efficiency according to diet quantity a...

Oceans cover more than 70 percent of the surface of our planet and are characterized by huge taxonomic and chemical diversity of marine organisms. Several studies have shown that marine organisms produce a variety of compounds, derived from primary or secondary metabolism, which may have antiviral activities. In particular, certain marine metabolit...

The chemical ecology of marine diatoms has been the subject of several studies in the last decades, due to the discovery of oxylipins with multiple simultaneous functions including roles in chemical defence (antipredator, allelopathic and antibacterial compounds) and/or cell-to-cell signalling. Diatoms represent a fundamental compartment of marine...

Marine sediments store complex mixtures of compounds, including heavy metals, organotins and a large array of other contaminants. Sediment quality monitoring, characterization and management are priorities, due to potential impacts of the above compounds on coastal waters and their biota, especially in cases of pollutants released during dredging a...

Oxygenated derivatives of fatty acids, collectively called oxylipins, are a highly diverse family of lipoxygenase (LOX) products well described in planktonic diatoms. Here we report the first investigation of these molecules in four benthic diatoms, Cylindrotheca closterium, Nanofrustulum shiloi, Cocconeis scutellum, and Diploneis sp. isolated from...

Micro- and/or mesocosms are experimental tools bringing ecologically relevant components of the natural environment under controlled conditions closest to the real world, without losing the advantage of reliable reference conditions and replications, providing a link between laboratory studies and filed studies in natural environments. Here, for th...

Extensive loss of macroalgal forests advocates for large-scale restoration interventions, to compensate habitat degradation and recover the associated ecological functions and services. Yet, restoration attempts have generally been limited to small spatial extensions, with the principal aim of developing efficient restoration techniques. Here, the...

Cyanobacteria may live in the water column and in the benthos of aquatic environments, or be symbionts of other organisms, as in the case of Phormidium-like cyanobacteria, known to influence the ecology of freshwater and marine ecosystems. A strain of Phormidium-like cyanobacteria has been recently isolated as a free-living epiphyte of leaves of Po...

Una delle conseguenze più evidenti del riscaldamento delle acque a livello globale è l’aumentata incidenza di malattie negli organismi acquatici. Negli ultimi anni si è assistito ad un aumento dei casi di mortalità di ricci di mare appartenenti a diverse specie. Ad oggi, la malattia è stata descritta in 19 specie di echinoidi, sia in ambiente natur...

“Infochemicals” (information-conveying chemicals) dominate much of the underwater communication in biological systems. They influence the movement and behavior of organisms, the ecological interactions between and across populations, and the trophic structure of marine food webs. However, relative to their terrestrial equivalents, the wider ecologi...

Larvae of the caridean shrimp Hippolyte inermis persist in the plankton of the Mediterranean up to about one month. Since they need to reach appropriate coastal areas for their recruitment in seagrass meadows, we hypothesized that leaves of Posidonia oceanica or, alternatively, algae present in their epiphytic biofilms, might be physically recognis...

We analysed the total mercury (Hg) accumulation in bodies and gut contents of 13 species of marine wild fish, 7 species of wild freshwater fish and 4 species of farmed fish. In addition, metal concentrations were recorded in water, sediment, fish prey and fodder materials, to track the dynamics of bio-accumulation. Cultured freshwater fish were col...

Ocean acidification (O.A.) influences the ecology of oceans and it may impact plant-animal interactions at various levels. Seagrass meadows located at acidified vents in the Bay of Naples (Italy) are considered an open window to forecast the effects of global-changes on aquatic communities. Epiphytic diatoms of the genus Cocconeis are abundant in s...

Diatoms are often the dominating group of benthic microalgae living on different types of bottom substrates. Their effects on invertebrate consumers is not well-documented. We here investigate the effects of feeding on another two benthic diatoms, Cocconeis scutellum and Diploneis sp., isolated from leaves of the seagrass Posidonia oceanica, on the...

Increasing emissions of CO 2 and the resultant ocean acidification (OA) will have large implications for the marine ecosystems sustained by habitat-forming species and their related ecosystem services (ES), with potentially significant impacts on human well-being. Here, we provide an assessment of the direct and indirect impacts of OA on ES. The ch...

Organisms adaptable to extreme conditions share the ability to establish protective biofilms or secrete defence toxins. The extracellular substances that are secreted may contain monosaccharides and other toxic compounds, but environmental conditions influence biofilm characteristics. Microorganisms that are present in the same environment achieve...

Diatoms are unicellular eukaryotic organisms that play a key ecological and biogeochemical role in oceans as major primary producers. Recently, these microalgae have also attracted interest as a promising source of functional products with widespread relevance. Progress in the knowledge of cell and molecular biology of diatoms is envisaged as a key...

Cyanobacteria contribute to the ecology of various marine environments, also for their symbioses, since some of them are common hosts of sponges and ascidians. They are also emerging as an important source of novel bioactive secondary metabolites in pharmacological (as anticancer drugs) and biotechnological applications. In the present work we isol...

Sea urchin gonads are exploited both for gastronomic and scientific purposes; thus, the production of large and mature gonads is essential. Natural populations of the Mediterranean Sea urchin Paracentrotus lividus are subject to increasing fishing efforts, due to continuous intensification of consumptions. Aquaculture practices may represent an ans...

Specie names, acronyms (used in the phylogenetic tree of Fig 3) and accession numbers of cyanobacteria used for phylogenetic analysis of 16S rRNA gene sequences. (DOCX)

Sequence identity percentage of the thirthy four cyanobacteria species used for phylogenetic tree. (XLS)

Top Blast Hit of 16S rRNA gene sequence of cyanobacterium isolated in this work on the Posidonia oceanica leaves by Basic Local Alignment Search Tool (BLASTN; https://blast.ncbi.nlm.nih.gov/Blast.cgi). (JPG)

Sex reversal is a process observed in several marine organisms, including some lineages of caridean shrimps. We investigated the gonopore shape and size, to study the sex reversal using Hippolyte inermis as a model. A method was developed which can be applied to identify the sex in juveniles of H. inermis, especially, useful when the standard metho...

The trophic ecology of the sea urchin Paracentrotus lividus, a key species in several shallow benthic communities, has been intensively studied, but the role of various foods in the processes of growth and gonadal maturation is still scarcely understood. This research assessed the effects of two fundamental food items for wild specimens of the sea...

The Mediterranean sea urchin Paracentrotus lividus Lamark, 1816 is a resource as food and model organism for scientific research. Increasing market demand, commercial fisheries and destructing harvesting methods produced a dramatic reduction of natural stocks along the Mediterranean coasts. The techniques for in vitro fertilization and growth of la...

Diatoms are unicellular algae playing a key role as photosynthetic organisms in the world's ocean food webs. The chemical ecology of planktonic diatoms is well documented, but few studies have reported on the effects of benthic diatoms on their consumers, also due to difficulties in the collection, quantification and massive culturing of benthic sp...

Modern research makes frequent use of animal models, that is, organisms raised and bred experimentally in order to help the understanding of biological and chemical processes affecting organisms or whole environments. The development of flexible, reprogrammable and modular systems that may help the automatic production of ‘not-easy-to-keep’ species...

The sea urchin Paracentrotus lividus (Lamarck, 1816) is a keystone herbivore in the Mediterranean Sea due to its ability to transform macroalgal-dominated communities into barren areas characterized by increased cover of bare substrates and encrusting coralline algae, reduced biodiversity and altered ecosystem functions. P. lividus is also an excel...

Boxplot of RIN values obtained with the five different methods of RNA extraction. The boxes extend from the 25th to the 75th percentile, and the line in the middle is the median. The error bars extend down to the lowest value and up to the highest. Dashed line at the RIN value of 8 is reported, because higher values than 8 are considered suitable f...

Correlation between RNA quality based on absorbance ratios (A260/280 and A260/230) and RIN values by Spearman's correlation coefficient and evaluation of their statistical difference by t-test, using the five different RNA extraction protocols for P. lividus embryos. We concern as statistically significant the p-values lower than 0.05. (DOC)

Table S_2. a) Original spreadsheets used to evaluate RAFI in the ecosystems considered in the manuscript; b) User spreadsheets to be filled with own data for computing the Relative Abundance of Trophic Resources (RAFI) in other ecosystems. Please fill only the white cells: other cells must not be modified. Do not consider empty stations: they all r...

Table S_1. Literature used to rank the abundance of trophic resources among ecosystems. The last section (biotope typologies) has been used principally to detect natural or anthropogenic pressures influencing the basic patterns of food availability. Reference numbers indicated in Tables 1 and 6 refer to the papers listed here.

The abundance and the distribution of trophic resources available for consumers influence the productivity and the diversity of natural communities. Nevertheless, assessment of the actual abundance of food items available for individual trophic groups has been constrained by differences in methods and metrics used by various authors. Here we develo...

Chemical communications among plant and animal components are fundamental elements for the functioning and the connectivity of ecosystems. In particular, wound-activated infochemicals trigger specifi c reactions of invertebrates according to evolutionary constraints, permitting them to identify prey cues, escape predators and optimize their behavio...

1. Spread of alien species (AS) is a serious threat to marine habitats and analysis of principal descriptors of their occurrence is pivotal to set reliable conservation strategies. 2. In order to assess the susceptibility of marine habitats to biological invasions, a dataset was gathered of the occurrence of 3899 species from 29 phyla, taken from 9...

Several plants and invertebrates interact and communicate by means of volatile organic compounds (VOCs). These compounds may play the role of infochemicals, being able to carry complex information to selected species, thus mediating inter- or intra-specific communications. Volatile organic compounds derived from the wounding of marine diatoms, for...

Volatile organic compounds (VOCs) may play the role of infochemicals and trigger chemotaxis and ecologically relevant responses in freshwater and marine invertebrates. Aquatic grazers use these signals as chemical cues to trace the presence of their food or to detect their predators. However, detailed data are still needed to fully understand the r...

Ecological relationships among seagrass epiphytes and associated mesograzers are still understudied, especially in the context of chemical signals in specific habitats such as the seagrass Posidonia oceanica. We investigated whether any volatile wound-activated infochemicals was released by three epiphytes of P. oceanica at two different concentrat...